Title: Draw Treemaps in 'ggplot2'
Description: Provides 'ggplot2' geoms for drawing treemaps.
Author: David Wilkins <david@wilkox.org>
Maintainer: David Wilkins <david@wilkox.org>
Diff between treemapify versions 2.5.1 dated 2018-10-06 and 2.5.2 dated 2018-10-13
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ NAMESPACE | 2 ++ NEWS.md | 6 ++++++ R/geom_treemap_subgroup_text.R | 2 ++ R/geom_treemap_text.R | 2 ++ inst/doc/introduction-to-treemapify.html | 10 +++++----- 7 files changed, 26 insertions(+), 14 deletions(-)
Title: Single Cell Genomics for Enhancing Cell Composition Inference
from Bulk Genomics Data
Description: Cellular population mapping (CPM) a deconvolution algorithm in which single-cell genomics is required in only one or a few samples, where in other samples of the same tissue, only bulk genomics is measured and the underlying fine resolution cellular heterogeneity is inferred.
Author: Amit Frishberg [aut, cre], Naama Peshes-Yaloz [aut], Irit Gat-Viks [aut]
Maintainer: Amit Frishberg <amfrishberg@gmail.com>
Diff between scBio versions 0.1.0 dated 2018-08-07 and 0.1.1 dated 2018-10-13
DESCRIPTION | 6 ++-- MD5 | 4 +- R/scBio.R | 83 +++++++++++++++++++++++------------------------------------- 3 files changed, 38 insertions(+), 55 deletions(-)
Title: Satellite Nightlight Data Extraction
Description: Extracts raster and zonal statistics
from satellite nightlight rasters downloaded from the United States
National Oceanic and Atmospheric Administration (<http://www.noaa.gov>)
free data repositories. Both the DMSP-OLS annual and SNPP-VIIRS monthly
nightlight raster data are supported. Satellite nightlight raster tiles are
downloaded and cropped to the country boundaries using shapefiles from the GADM
database of Global Administrative Areas (<http://gadm.org>). Zonal statistics
are then calculated at the lowest administrative boundary for the selected
country and cached locally for future retrieval. Finally, a simple data
explorer/browser is included that allows one to visualize the cached data e.g.
graphing, mapping and clustering regional data.
Author: Christopher Njuguna [aut, cre, cph]
Maintainer: Christopher Njuguna <chris.njuguna@gmail.com>
Diff between Rnightlights versions 0.2.2 dated 2018-07-24 and 0.2.3 dated 2018-10-13
Rnightlights-0.2.2/Rnightlights/tests/testthat/STP_NLData.csv |only Rnightlights-0.2.2/Rnightlights/tests/testthat/tests_ctrynldata |only Rnightlights-0.2.3/Rnightlights/DESCRIPTION | 10 Rnightlights-0.2.3/Rnightlights/MD5 | 124 - Rnightlights-0.2.3/Rnightlights/R/ctrycode.R | 10 Rnightlights-0.2.3/Rnightlights/R/ctrynldata.R | 730 +++++----- Rnightlights-0.2.3/Rnightlights/R/datapath.R | 72 Rnightlights-0.2.3/Rnightlights/R/downloadnltiles.R | 64 Rnightlights-0.2.3/Rnightlights/R/exploredata.R | 2 Rnightlights-0.2.3/Rnightlights/R/getnlfilename.R | 74 - Rnightlights-0.2.3/Rnightlights/R/getnlurl.R | 8 Rnightlights-0.2.3/Rnightlights/R/masq.R | 52 Rnightlights-0.2.3/Rnightlights/R/nightlights.R | 167 +- Rnightlights-0.2.3/Rnightlights/R/nlperiod.R | 27 Rnightlights-0.2.3/Rnightlights/R/options.R | 55 Rnightlights-0.2.3/Rnightlights/R/polygons.R | 390 +++-- Rnightlights-0.2.3/Rnightlights/R/stats.R | 316 +++- Rnightlights-0.2.3/Rnightlights/R/tiles.R | 56 Rnightlights-0.2.3/Rnightlights/R/upgrade.R | 34 Rnightlights-0.2.3/Rnightlights/R/utils.R | 14 Rnightlights-0.2.3/Rnightlights/inst/application/server.R | 297 ++-- Rnightlights-0.2.3/Rnightlights/inst/application/ui.R | 62 Rnightlights-0.2.3/Rnightlights/man/allValidCtryAdmLvls.Rd | 2 Rnightlights-0.2.3/Rnightlights/man/createCtryNlDataDF.Rd | 2 Rnightlights-0.2.3/Rnightlights/man/createCtryStruct.Rd | 2 Rnightlights-0.2.3/Rnightlights/man/ctryShpLyrName2Num.Rd | 2 Rnightlights-0.2.3/Rnightlights/man/deleteNlDataCol.Rd | 2 Rnightlights-0.2.3/Rnightlights/man/dnldCtryPoly.Rd | 2 Rnightlights-0.2.3/Rnightlights/man/existsCtryNlData.Rd | 2 Rnightlights-0.2.3/Rnightlights/man/existsCtryNlDataFile.Rd | 4 Rnightlights-0.2.3/Rnightlights/man/existsCtryPoly.Rd | 2 Rnightlights-0.2.3/Rnightlights/man/existsPolyFnamePath.Rd | 4 Rnightlights-0.2.3/Rnightlights/man/existsPolyFnameZip.Rd | 2 Rnightlights-0.2.3/Rnightlights/man/getCtryNlData.Rd | 2 Rnightlights-0.2.3/Rnightlights/man/getCtryNlDataFname.Rd | 2 Rnightlights-0.2.3/Rnightlights/man/getCtryNlDataFnamePath.Rd | 2 Rnightlights-0.2.3/Rnightlights/man/getCtryPolyAdmLevelNames.Rd | 2 Rnightlights-0.2.3/Rnightlights/man/getCtryPolyUrl.Rd | 2 Rnightlights-0.2.3/Rnightlights/man/getCtryShpAllAdmLvls.Rd | 4 Rnightlights-0.2.3/Rnightlights/man/getCtryShpLowestLyrNames.Rd | 4 Rnightlights-0.2.3/Rnightlights/man/getCtryShpLyrNames.Rd | 2 Rnightlights-0.2.3/Rnightlights/man/getCtryStructAdmLevelNames.Rd | 2 Rnightlights-0.2.3/Rnightlights/man/getCtryStructFname.Rd | 2 Rnightlights-0.2.3/Rnightlights/man/getCtryStructFnamePath.Rd | 4 Rnightlights-0.2.3/Rnightlights/man/getPolyFname.Rd | 2 Rnightlights-0.2.3/Rnightlights/man/getPolyFnamePath.Rd | 2 Rnightlights-0.2.3/Rnightlights/man/getPolyFnameRDS.Rd | 2 Rnightlights-0.2.3/Rnightlights/man/getPolyFnameZip.Rd | 2 Rnightlights-0.2.3/Rnightlights/man/masqOLS.Rd | 7 Rnightlights-0.2.3/Rnightlights/man/masqVIIRS.Rd | 7 Rnightlights-0.2.3/Rnightlights/man/myZonal.Rd | 11 Rnightlights-0.2.3/Rnightlights/man/pkgOptions.Rd | 41 Rnightlights-0.2.3/Rnightlights/man/readCtryPolyAdmLayer.Rd | 5 Rnightlights-0.2.3/Rnightlights/man/readCtryStruct.Rd | 2 Rnightlights-0.2.3/Rnightlights/man/saveCtryNlData.Rd | 2 Rnightlights-0.2.3/Rnightlights/man/searchAdmLevel.Rd | 2 Rnightlights-0.2.3/Rnightlights/man/validCtryAdmLvls.Rd | 4 Rnightlights-0.2.3/Rnightlights/tests/testthat/NL_DATA_STP_ADM0_GADM-2.8.csv |only Rnightlights-0.2.3/Rnightlights/tests/testthat/helper_ctrynldata.R |only Rnightlights-0.2.3/Rnightlights/tests/testthat/helper_masq.R | 4 Rnightlights-0.2.3/Rnightlights/tests/testthat/test-admlevels.R | 10 Rnightlights-0.2.3/Rnightlights/tests/testthat/test-ctrynldata.R |only Rnightlights-0.2.3/Rnightlights/tests/testthat/test-ctrynltiles.R | 2 Rnightlights-0.2.3/Rnightlights/tests/testthat/test-ctrypoly.R | 2 Rnightlights-0.2.3/Rnightlights/tests/testthat/test-nlfilename.R | 12 65 files changed, 1606 insertions(+), 1131 deletions(-)
Title: Mendelian Randomization (MR) Based PC Algorithm
Description: Infer causal graphs using the principle of Mendelian randomization-based PC (MRPC) algorithm. See Badsha and Fu (2018) <doi:10.1101/171348>,Badsha et al. (2018) <arXiv:1806.01899>.
Author: Md Bahadur Badsha [aut,cre],Evan A Martin [ctb] and Audrey Qiuyan Fu [aut]
Maintainer: Md Bahadur Badsha <mdbadsha@uidaho.edu>
Diff between MRPC versions 1.0.0 dated 2018-08-14 and 2.0.0 dated 2018-10-13
DESCRIPTION | 14 - MD5 | 103 +++++---- NAMESPACE | 80 ++++--- R/Case_1P.R | 2 R/Classes.R |only R/DendroModuleGraph.R | 16 - R/EdgeOrientation.R | 443 ++++++++++++++++++++++++++++++---------- R/InferenceAccuracyExample.R |only R/MRPC.R | 6 R/ModiSkeleton.R | 19 + R/Recall_Precision.R |only R/SimulationDemo.R |only R/aSHD.R | 10 R/seqDiff.R |only README.md | 71 ++++-- data/Data_withoutlier.rda |only data/Data_withoutoutlier.rda |only data/ExampleMRPC.rda |binary data/MRPCtruth.rda |only data/simu.data_M0.rda |binary data/simu.data_M1.rda |binary data/simu.data_M2.rda |binary data/simu.data_M3.rda |binary data/simu.data_M4.rda |binary data/simu.data_layered.rda |binary data/simu.data_multiparent.rda |binary data/simu.data_starshaped.rda |binary man/Case_1P.Rd | 12 - man/Case_2P.Rd | 18 - man/Case_3P.Rd | 24 +- man/Case_NP.Rd | 8 man/Cut_Modules.Rd | 24 +- man/Data_GEUVADIS.Rd | 9 man/Data_withoutlier.Rd |only man/Data_withoutoutlier.Rd |only man/DendroModuleGraph.Rd | 30 +- man/EdgeOrientation.Rd | 224 +++++++++----------- man/ExampleMRPC.Rd | 164 +++++++++++++- man/Example_Outlier.Rd |only man/InferenceAccuracyExample.Rd |only man/MRPC.Rd | 287 ++++++++++++++++--------- man/MRPCclass.Rd |only man/MRPCtruth.Rd |only man/ModiSkeleton.Rd | 251 ++++++++++------------ man/Recall_Precision.Rd |only man/RobustCor.Rd | 23 +- man/SeqFDR.Rd | 16 - man/SimulatedData.Rd | 91 ++++---- man/SimulationDemo.Rd |only man/aSHD.Rd | 86 +++++-- man/empty.Rd | 2 man/mpinv.Rd | 6 man/seqDiff.Rd |only man/simudata_Layered.Rd | 19 + man/simudata_M0.Rd | 14 - man/simudata_M1.Rd | 14 - man/simudata_M2.Rd | 14 - man/simudata_M3.Rd | 12 - man/simudata_M4.Rd | 12 - man/simudata_multiparent.Rd | 16 - man/simudata_starshaped.Rd | 12 - 61 files changed, 1369 insertions(+), 783 deletions(-)
Title: Analysis of Visual Meteor Data
Description: Functions for selection of visual meteor data, calculations of Zenithal Hourly Rate (ZHR) and population index, graphics of population index, ZHR and magnitude distribution.
Author: Kristina Veljkovic
Maintainer: Kristina Veljkovic <mackikac@gmail.com>
Diff between MetFns versions 3.2.1 dated 2018-08-23 and 3.2.2 dated 2018-10-13
DESCRIPTION | 10 +++++----- MD5 | 25 +++++++++++++------------ NAMESPACE | 2 +- R/graph.data.R | 5 ++--- R/pop.index.plot.R | 44 +++++++++++++++++++++++++++++++++++++++----- R/zhr.R | 2 +- R/zhr.plot.R | 45 ++++++++++++++++++++++++++++++++++++++++----- man/MetFns-package.Rd | 4 ++-- man/opt.bin.Rd |only man/pop.index.Rd | 12 +++++++----- man/pop.index.plot.Rd | 30 ++++++++++++++++++++++++------ man/pop.index2.Rd | 10 ++++++---- man/zhr.Rd | 24 ++++++++++++++---------- man/zhr.plot.Rd | 39 +++++++++++++++++++++++++++++---------- 14 files changed, 183 insertions(+), 69 deletions(-)
Title: The Integration Between 'IBM COGNOS TM1' and R
Description: Useful functions to connect to 'TM1' <https://www.ibm.com/uk-en/marketplace/planning-and-analytics> instance from R via REST API. With the functions in the package, data can be imported from 'TM1' via mdx view or native view, data can be sent to 'TM1', processes and chores can be executed, and cube and dimension metadata information can be taken.
Author: Muhammed Ali Onder
Maintainer: Muhammed Ali Onder <muhammedalionder@gmail.com>
Diff between tm1r versions 1.0.1 dated 2018-08-09 and 1.0.2 dated 2018-10-13
tm1r-1.0.1/tm1r/README.md |only tm1r-1.0.2/tm1r/DESCRIPTION | 6 +- tm1r-1.0.2/tm1r/MD5 | 45 ++++++++++-------- tm1r-1.0.2/tm1r/R/tm1_get_element.R |only tm1r-1.0.2/tm1r/R/tm1_get_mdx_view.R | 4 - tm1r-1.0.2/tm1r/R/tm1_get_native_view.R | 4 - tm1r-1.0.2/tm1r/R/tm1_insert_dimension_element.R |only tm1r-1.0.2/tm1r/R/tm1_mdx_generate.R | 25 ++++++---- tm1r-1.0.2/tm1r/R/tm1_send_data.R | 6 +- tm1r-1.0.2/tm1r/R/tm1_send_dataset.R |only tm1r-1.0.2/tm1r/man/tm1_connection.Rd | 4 + tm1r-1.0.2/tm1r/man/tm1_get_config.Rd | 6 +- tm1r-1.0.2/tm1r/man/tm1_get_cube_dimensions.Rd | 6 +- tm1r-1.0.2/tm1r/man/tm1_get_data.Rd | 6 +- tm1r-1.0.2/tm1r/man/tm1_get_dimension_element_next.Rd | 6 +- tm1r-1.0.2/tm1r/man/tm1_get_dimension_elements.Rd | 6 +- tm1r-1.0.2/tm1r/man/tm1_get_element.Rd |only tm1r-1.0.2/tm1r/man/tm1_get_log.Rd | 6 +- tm1r-1.0.2/tm1r/man/tm1_get_mdx_view.Rd | 11 ++-- tm1r-1.0.2/tm1r/man/tm1_get_native_view.Rd | 11 ++-- tm1r-1.0.2/tm1r/man/tm1_insert_dimension_element.Rd |only tm1r-1.0.2/tm1r/man/tm1_logout.Rd | 6 +- tm1r-1.0.2/tm1r/man/tm1_mdx_generate.Rd | 2 tm1r-1.0.2/tm1r/man/tm1_run_chore.Rd | 6 +- tm1r-1.0.2/tm1r/man/tm1_run_process.Rd | 6 +- tm1r-1.0.2/tm1r/man/tm1_send_data.Rd | 6 +- tm1r-1.0.2/tm1r/man/tm1_send_dataset.Rd |only 27 files changed, 108 insertions(+), 70 deletions(-)
Title: Execute Native Scripts
Description: Run complex native scripts with a single command, similar to system commands.
Author: Sagie Gur-Ari [aut, cre]
Maintainer: Sagie Gur-Ari <sagiegurari@gmail.com>
Diff between scriptexec versions 0.2.2 dated 2018-10-01 and 0.2.3 dated 2018-10-13
scriptexec-0.2.2/scriptexec/demo/print-directory.R |only scriptexec-0.2.3/scriptexec/DESCRIPTION | 11 scriptexec-0.2.3/scriptexec/MD5 | 52 - scriptexec-0.2.3/scriptexec/NAMESPACE | 2 scriptexec-0.2.3/scriptexec/NEWS.md | 30 scriptexec-0.2.3/scriptexec/R/scriptexec.R | 161 +++- scriptexec-0.2.3/scriptexec/README.md | 43 - scriptexec-0.2.3/scriptexec/demo/00Index | 4 scriptexec-0.2.3/scriptexec/demo/background-invocation.R |only scriptexec-0.2.3/scriptexec/demo/execute-multiple-commands.R |only scriptexec-0.2.3/scriptexec/demo/pass-arguments-and-vars.R |only scriptexec-0.2.3/scriptexec/inst/doc/scriptexec.R | 40 - scriptexec-0.2.3/scriptexec/inst/doc/scriptexec.Rmd | 40 - scriptexec-0.2.3/scriptexec/inst/doc/scriptexec.html | 54 - scriptexec-0.2.3/scriptexec/man/build_output.Rd |only scriptexec-0.2.3/scriptexec/man/execute.Rd | 41 - scriptexec-0.2.3/scriptexec/man/on_invoke_error.Rd |only scriptexec-0.2.3/scriptexec/tests/testthat/helper.R | 13 scriptexec-0.2.3/scriptexec/tests/testthat/test_api_stability.R | 167 ++--- scriptexec-0.2.3/scriptexec/tests/testthat/test_build_output.R |only scriptexec-0.2.3/scriptexec/tests/testthat/test_create_script_file.R | 16 scriptexec-0.2.3/scriptexec/tests/testthat/test_demos.R |only scriptexec-0.2.3/scriptexec/tests/testthat/test_examples.R |only scriptexec-0.2.3/scriptexec/tests/testthat/test_execute.R | 67 +- scriptexec-0.2.3/scriptexec/tests/testthat/test_generate_env_setup_script.R | 27 scriptexec-0.2.3/scriptexec/tests/testthat/test_get_command.R | 8 scriptexec-0.2.3/scriptexec/tests/testthat/test_get_platform_value.R | 4 scriptexec-0.2.3/scriptexec/tests/testthat/test_lintr.R |only scriptexec-0.2.3/scriptexec/tests/testthat/test_modify_script.R | 26 scriptexec-0.2.3/scriptexec/tests/testthat/test_on_invoke_error.R |only scriptexec-0.2.3/scriptexec/tools/build.R | 331 ++++++---- scriptexec-0.2.3/scriptexec/tools/example-code.R |only scriptexec-0.2.3/scriptexec/vignettes/scriptexec.Rmd | 40 - 33 files changed, 721 insertions(+), 456 deletions(-)
Title: Group Sequential Enrichment Design
Description: Provides function to apply "Group sequential enrichment design incorporating subgroup selection" (GSED) method proposed by Magnusson and Turnbull (2013) <doi:10.1002/sim.5738>.
Author: Marie-Karelle Riviere
Maintainer: Marie-Karelle Riviere <eldamjh@gmail.com>
Diff between GSED versions 1.9 dated 2018-09-26 and 1.10 dated 2018-10-13
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/GSED.R | 7 ++++--- man/GSED-package.Rd | 4 ++-- 4 files changed, 13 insertions(+), 12 deletions(-)
Title: Cross-National Data on Sub-National Violence
Description: Tools to download and merge data files on sub-national conflict, violence and protests from <http://www.x-sub.org>.
Author: Yuri Zhukov [cre],
Christian Davenport [aut],
Nadiya Kostyuk [aut]
Maintainer: Yuri Zhukov <zhukov@umich.edu>
Diff between xSub versions 0.0.1 dated 2017-10-11 and 2.0.1 dated 2018-10-13
xSub-0.0.1/xSub/R/xSub_census.R |only xSub-0.0.1/xSub/data/xSub_census.RData |only xSub-0.0.1/xSub/man/xSub_census.Rd |only xSub-2.0.1/xSub/DESCRIPTION | 6 xSub-2.0.1/xSub/MD5 | 31 + xSub-2.0.1/xSub/R/get_xSub.R | 79 +++- xSub-2.0.1/xSub/R/get_xSub_multi.R | 78 +++- xSub-2.0.1/xSub/R/info_xSub.R | 282 +++++++++++++++- xSub-2.0.1/xSub/R/sysdata.rda |binary xSub-2.0.1/xSub/R/xSub_census_individual_raw.R |only xSub-2.0.1/xSub/R/xSub_census_individual_spatial.R |only xSub-2.0.1/xSub/R/xSub_census_multiple_raw.R |only xSub-2.0.1/xSub/R/xSub_census_multiple_spatial.R |only xSub-2.0.1/xSub/data/xSub_census_individual_raw.rda |only xSub-2.0.1/xSub/data/xSub_census_individual_spatial.rda |only xSub-2.0.1/xSub/data/xSub_census_multiple_raw.rda |only xSub-2.0.1/xSub/data/xSub_census_multiple_spatial.rda |only xSub-2.0.1/xSub/man/get_xSub.Rd | 33 + xSub-2.0.1/xSub/man/get_xSub_multi.Rd | 29 + xSub-2.0.1/xSub/man/info_xSub.Rd | 25 + xSub-2.0.1/xSub/man/xSub_census_individual_raw.Rd |only xSub-2.0.1/xSub/man/xSub_census_individual_spatial.Rd |only xSub-2.0.1/xSub/man/xSub_census_multiple_raw.Rd |only xSub-2.0.1/xSub/man/xSub_census_multiple_spatial.Rd |only 24 files changed, 507 insertions(+), 56 deletions(-)
Title: Locate Trans and Intersex-Friendly Toilets
Description: Access the 'Refuge' API, a web-application for locating trans and
intersex-friendly restrooms, including unisex and accessible restrooms.
Includes data on the location of restrooms, along with directions,
comments, user ratings and amenities. Coverage is global, but data is
most comprehensive in the United States.
See <https://www.refugerestrooms.org/api/docs/> for full API documentation.
Author: Evan Odell [aut, cre] (<https://orcid.org/0000-0003-1845-808X>)
Maintainer: Evan Odell <evanodell91@gmail.com>
Diff between refuge versions 0.1.1 dated 2018-04-20 and 0.2.0 dated 2018-10-13
DESCRIPTION | 14 +- MD5 | 46 +++--- NAMESPACE | 1 NEWS.md |only R/all_bathrooms.R | 24 ++- R/bathroom_dates.R | 8 - R/location.R | 7 - R/refuge-package.R | 2 R/search.R | 6 R/utils-baseurl.R | 1 R/utils-looper.R | 6 R/utils-tidy.R |only README.md | 23 ++- build/vignette.rds |binary inst/doc/introduction.R | 40 +++--- inst/doc/introduction.Rmd | 44 ++++-- inst/doc/introduction.html | 273 +++++++++++++++++++++++++++++++++-------- man/refuge-package.Rd | 2 man/rfg_all_restrooms.Rd | 13 + man/rfg_date.Rd | 6 man/rfg_location.Rd | 9 - man/rfg_search.Rd | 9 + tests/testthat/test-location.R | 3 tests/testthat/test-search.R | 1 vignettes/introduction.Rmd | 44 ++++-- 25 files changed, 410 insertions(+), 172 deletions(-)
Title: Regional Economic Analysis Toolbox
Description: Collection of models and analysis methods used in regional and urban economics and (quantitative) economic geography, e.g. measures of inequality, regional disparities and convergence, regional specialization as well as accessibility and spatial interaction models.
Author: Thomas Wieland
Maintainer: Thomas Wieland <thomas.wieland.geo@googlemail.com>
Diff between REAT versions 2.0.2 dated 2018-10-04 and 2.0.3 dated 2018-10-13
DESCRIPTION | 8 ++++---- MD5 | 10 ++++++---- NAMESPACE | 2 +- R/mssd.R |only man/betaconv.ols.Rd | 6 +++--- man/mssd.Rd |only man/sigmaconv.t.Rd | 7 ++++--- 7 files changed, 18 insertions(+), 15 deletions(-)
Title: Download and Explore Datasets from UCSC Xena Data Hubs
Description: Download and explore datasets from UCSC Xena data hubs, which are
a collection of UCSC-hosted public databases such as TCGA, ICGC, TARGET, GTEx, CCLE, and others.
Databases are normalized so they can be combined, linked, filtered, explored and downloaded.
This package is based on 'XenaR' package.
Author: Shixiang Wang [aut, cre] (<https://orcid.org/0000-0001-9855-7357>),
Martin Morgan [aut]
Maintainer: Shixiang Wang <w_shixiang@163.com>
Diff between UCSCXenaTools versions 0.2.4 dated 2018-09-12 and 0.2.5 dated 2018-10-13
DESCRIPTION | 13 ++-- MD5 | 34 +++++----- NEWS.md | 5 + R/XenaHub-class.R | 42 ++++++++----- R/download.R | 14 +--- R/simplify.R | 8 +- README.md | 51 ++++++++-------- data/XenaData.rda |binary inst/doc/USCSXenaTools.Rmd | 19 +++--- inst/doc/USCSXenaTools.html | 138 +++++++++++++++++++++----------------------- man/XenaDataUpdate.Rd | 7 -- man/XenaDownload.Rd | 5 - man/XenaFilter.Rd | 3 man/XenaHub.Rd | 4 - man/XenaPrepare.Rd | 8 +- man/downloadTCGA.Rd | 2 man/getTCGAdata.Rd | 6 - vignettes/USCSXenaTools.Rmd | 19 +++--- 18 files changed, 195 insertions(+), 183 deletions(-)
Title: Unit Testing for R
Description: Software testing is important, but, in part because it is
frustrating and boring, many of us avoid it. 'testthat' is a testing framework
for R that is easy learn and use, and integrates with your existing 'workflow'.
Author: Hadley Wickham [aut, cre],
RStudio [cph, fnd],
R Core team [ctb] (Implementation of utils::recover())
Maintainer: Hadley Wickham <hadley@rstudio.com>
Diff between testthat versions 2.0.0 dated 2017-12-13 and 2.0.1 dated 2018-10-13
DESCRIPTION | 8 - MD5 | 16 +-- NEWS.md | 7 + build/vignette.rds |binary inst/doc/custom-expectation.html | 144 +++++++++++++++++++---------------- inst/include/testthat/vendor/catch.h | 63 +++++++-------- src/test-catch.cpp | 4 tests/test-catch.R | 5 - tests/testthat/test-mock.R | 2 9 files changed, 136 insertions(+), 113 deletions(-)
Title: A Semi-Supervised Category Identification and Assignment Tool
Description: An automatic cell type detection and assignment algorithm for single cell RNA-Seq and Cytof/FACS data. 'SCINA' is capable of assigning cell type identities to a pool of cells profiled by scRNA-Seq or Cytof/FACS data with prior knowledge of markers, such as genes and protein symbols that are highly or lowly expressed in each category.
Author: Ze Zhang
Maintainer: Ze Zhang <Ze.Zhang@utsouthwestern.edu>
Diff between SCINA versions 1.0.0 dated 2018-10-08 and 1.0.1 dated 2018-10-13
DESCRIPTION | 6 +++--- MD5 | 4 ++-- man/SCINA.Rd | 15 +++++++-------- 3 files changed, 12 insertions(+), 13 deletions(-)
Title: Psychometric Meta-Analysis Toolkit
Description: Tools for computing bare-bones and psychometric meta-analyses and for generating psychometric data for use in meta-analysis simulations. Supports bare-bones, individual-correction, and artifact-distribution methods for meta-analyzing correlations and d values. Includes tools for converting effect sizes, computing sporadic artifact corrections, reshaping meta-analytic databases, computing multivariate corrections for range variation, and more. Bugs can be reported to <https://github.com/psychmeta/psychmeta/issues> or <issues@psychmeta.com>.
Author: Jeffrey A. Dahlke [aut, cre],
Brenton M. Wiernik [aut],
Michael T. Brannick [ctb] (Testing),
Jack Kostal [ctb] (Code for reshape_mat2dat function),
Sean Potter [ctb] (Testing; Code for cumulative and leave1out plots),
John Sakaluk [ctb] (Code for funnel and forest plots),
Yuejia (Mandy) Teng [ctb] (Testing)
Maintainer: Jeffrey A. Dahlke <dahlk068@umn.edu>
Diff between psychmeta versions 2.2.0 dated 2018-09-18 and 2.2.1 dated 2018-10-13
DESCRIPTION | 10 +- MD5 | 148 +++++++++++++++--------------- NAMESPACE | 1 NEWS | 13 ++ R/convert_es.R | 95 ++++++++----------- R/heterogeneity.R | 12 +- R/impute_artifacts_wrapper.R | 15 ++- R/ma_d.R | 11 ++ R/ma_d_bb.R | 9 + R/ma_d_ic.R | 8 + R/ma_d_order2.R | 9 + R/ma_generic.R | 10 ++ R/ma_r.R | 39 +++++-- R/ma_r_ad.R | 5 - R/ma_r_bb.R | 8 + R/ma_r_ic.R | 8 + R/ma_r_order2.R | 8 + R/ma_wrappers.R | 3 R/metareg.R | 6 + R/plotting.R | 12 ++ R/reshape.R | 205 ++++++++++++++++++++++++++++++------------ R/sensitivity.R | 6 + R/sensitivity_bootstrap.R | 9 + R/sensitivity_cumulative.R | 9 + R/sensitivity_leave1out.R | 9 + R/simulate_d.R | 13 ++ R/simulate_r.R | 15 ++- R/wrangle_data.R | 11 +- R/zzz.R | 4 build/vignette.rds |binary inst/CITATION | 11 +- inst/doc/overview.html | 2 man/composite_rel_matrix.Rd | 3 man/composite_u_matrix.Rd | 4 man/compute_dmod_npar.Rd | 4 man/control_psychmeta.Rd | 16 +-- man/convert_es.Rd | 8 - man/correct_d.Rd | 6 - man/correct_glass_bias.Rd | 3 man/correct_means_mvrr.Rd | 4 man/correct_r.Rd | 13 +- man/correct_r_coarseness.Rd | 10 +- man/create_ad.Rd | 35 +++---- man/create_ad_tibble.Rd | 29 +++-- man/credibility.Rd | 4 man/estimate_prod.Rd | 4 man/estimate_u.Rd | 4 man/estimate_var_artifacts.Rd | 28 +++-- man/estimate_var_rho_int.Rd | 12 +- man/estimate_var_rho_tsa.Rd | 19 ++- man/estimate_var_tsa.Rd | 3 man/format_num.Rd | 9 + man/generate_bib.Rd | 11 +- man/get_stuff.Rd | 21 ++-- man/impute_artifacts.Rd | 7 - man/ma_d.Rd | 56 ++++++----- man/ma_generic.Rd | 10 +- man/ma_r.Rd | 52 +++++----- man/ma_wrapper.Rd | 5 - man/metabulate.Rd | 22 ++-- man/organize_database.Rd | 7 - man/organize_moderators.Rd | 5 - man/plot_forest.Rd | 7 - man/reshape_mat2dat.Rd | 5 - man/reshape_vec2mat.Rd | 4 man/reshape_wide2long.Rd | 7 + man/sensitivity.Rd | 11 +- man/simulate_alpha.Rd | 4 man/simulate_d_database.Rd | 11 +- man/simulate_d_sample.Rd | 8 - man/simulate_r_database.Rd | 11 +- man/var_error_alpha.Rd | 3 man/var_error_r_bvirr.Rd | 20 ++-- man/wt_cov.Rd | 5 - man/wt_dist.Rd | 8 - 75 files changed, 764 insertions(+), 478 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-10-02 0.1.1
2018-09-28 0.1
Title: Manage Cached Files
Description: Suite of tools for managing cached files, targeting
use in other R packages. Uses 'rappdirs' for cross-platform paths.
Provides utilities to manage cache directories, including targeting
files by path or by key; cached directories can be compressed and
uncompressed easily to save disk space.
Author: Scott Chamberlain [aut, cre]
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>
Diff between hoardr versions 0.2.0 dated 2017-05-09 and 0.5.0 dated 2018-10-13
DESCRIPTION | 12 LICENSE | 2 MD5 | 18 NEWS.md | 9 R/hoard_client.R | 51 + README.md | 11 build/vignette.rds |binary inst/doc/hoardr_vignette.html | 1300 +++++++++++++++++++++++++++++++++++++- man/hoard.Rd | 31 tests/testthat/test-HoardClient.R | 18 10 files changed, 1405 insertions(+), 47 deletions(-)