Title: Statistical Functions for the Delaporte Distribution
Description: Provides probability mass, distribution, quantile, random-variate generation, and method-of-moments parameter-estimation functions for the Delaporte distribution. The Delaporte is a discrete probability distribution which can be considered the convolution of a negative binomial distribution with a Poisson distribution. Alternatively, it can be considered a counting distribution with both Poisson and negative binomial components. It has been studied in actuarial science as a frequency distribution which has more variability than the Poisson, but less than the negative binomial.
Author: Avraham Adler [aut, cph, cre]
Maintainer: Avraham Adler <Avraham.Adler@gmail.com>
Diff between Delaporte versions 6.0.0 dated 2017-03-31 and 6.1.0 dated 2017-08-12
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- README.md | 3 --- build/partial.rdb |binary inst/NEWS.Rd | 8 ++++++++ man/Delaporte-package.Rd | 4 ++-- man/Delaporte.Rd | 7 +++++-- src/delaporte.f95 | 4 +++- tests/testthat/test-delap.r | 6 +++--- 9 files changed, 33 insertions(+), 23 deletions(-)
Title: Removes the Cell-Cycle Effect from Single-Cell RNA-Sequencing
Data
Description: Implements a method for identifying and removing
the cell-cycle effect from scRNA-Seq data. The description of the
method is in Barron M. and Li J. (2016) <doi:10.1038/srep33892>. Identifying and removing
the cell-cycle effect from single-cell RNA-Sequencing data. Submitted.
Different from previous methods, ccRemover implements a mechanism that
formally tests whether a component is cell-cycle related or not, and thus
while it often thoroughly removes the cell-cycle effect, it preserves
other features/signals of interest in the data.
Author: Jun Li [aut, cre],
Martin Barron [aut]
Maintainer: Jun Li <jun.li@nd.edu>
Diff between ccRemover versions 1.0.2 dated 2017-07-26 and 1.0.3 dated 2017-08-12
DESCRIPTION | 6 +++--- MD5 | 4 ++-- inst/doc/ccRemover_tutorial.html | 4 ++-- 3 files changed, 7 insertions(+), 7 deletions(-)
Title: Clustering of Variables
Description: Cluster analysis of a set of variables. Variables can be quantitative, qualitative or a mixture of both.
Author: Marie Chavent [aut, cre],
Vanessa Kuentz [aut],
Benoit Liquet [aut],
Jerome Saracco [aut]
Maintainer: Marie Chavent <Marie.Chavent@u-bordeaux.fr>
Diff between ClustOfVar versions 0.8 dated 2013-12-03 and 1.1 dated 2017-08-12
ClustOfVar-0.8/ClustOfVar/R/missing.mean.R |only ClustOfVar-0.8/ClustOfVar/R/recod.R |only ClustOfVar-0.8/ClustOfVar/R/recodqual.R |only ClustOfVar-0.8/ClustOfVar/R/recodquant.R |only ClustOfVar-0.8/ClustOfVar/R/tab.disjonctif.NA.R |only ClustOfVar-0.8/ClustOfVar/man/ClustOfVar-package.Rd |only ClustOfVar-1.1/ClustOfVar/DESCRIPTION | 28 - ClustOfVar-1.1/ClustOfVar/MD5 | 98 ++-- ClustOfVar-1.1/ClustOfVar/NAMESPACE | 42 + ClustOfVar-1.1/ClustOfVar/R/bootvar.R | 66 +-- ClustOfVar-1.1/ClustOfVar/R/clust_diss.R | 46 +- ClustOfVar-1.1/ClustOfVar/R/clusterscore.R | 44 +- ClustOfVar-1.1/ClustOfVar/R/cutreevar.R | 96 +++- ClustOfVar-1.1/ClustOfVar/R/descript.R | 49 +- ClustOfVar-1.1/ClustOfVar/R/getnnsvar.R | 70 +-- ClustOfVar-1.1/ClustOfVar/R/hclustvar.R | 378 ++++++++++------- ClustOfVar-1.1/ClustOfVar/R/kmeansvar.R | 437 +++++++++++--------- ClustOfVar-1.1/ClustOfVar/R/mixedVarSim.R | 115 ++--- ClustOfVar-1.1/ClustOfVar/R/plot.clustab.R | 39 + ClustOfVar-1.1/ClustOfVar/R/plot.clustvar.R |only ClustOfVar-1.1/ClustOfVar/R/plot.hclustvar.R | 65 +- ClustOfVar-1.1/ClustOfVar/R/predict.clustvar.R | 34 - ClustOfVar-1.1/ClustOfVar/R/print.clustab.R | 37 + ClustOfVar-1.1/ClustOfVar/R/print.clustvar.R | 57 +- ClustOfVar-1.1/ClustOfVar/R/print.hclustvar.R | 80 ++- ClustOfVar-1.1/ClustOfVar/R/rand.R | 101 ++-- ClustOfVar-1.1/ClustOfVar/R/stability.R | 123 +++-- ClustOfVar-1.1/ClustOfVar/R/summary.clustab.R | 27 - ClustOfVar-1.1/ClustOfVar/R/summary.clustvar.R | 116 +++-- ClustOfVar-1.1/ClustOfVar/README.md |only ClustOfVar-1.1/ClustOfVar/data/dogs.RData |only ClustOfVar-1.1/ClustOfVar/data/flower.rda |only ClustOfVar-1.1/ClustOfVar/data/gironde.rda |only ClustOfVar-1.1/ClustOfVar/data/protein.RData |only ClustOfVar-1.1/ClustOfVar/man/bootvar.Rd |only ClustOfVar-1.1/ClustOfVar/man/clust_diss.Rd |only ClustOfVar-1.1/ClustOfVar/man/clusterscore.Rd |only ClustOfVar-1.1/ClustOfVar/man/cutreevar.Rd | 87 ++- ClustOfVar-1.1/ClustOfVar/man/decathlon.Rd | 63 +- ClustOfVar-1.1/ClustOfVar/man/descript.Rd |only ClustOfVar-1.1/ClustOfVar/man/dogs.Rd |only ClustOfVar-1.1/ClustOfVar/man/flower.Rd |only ClustOfVar-1.1/ClustOfVar/man/getnnsvar.Rd |only ClustOfVar-1.1/ClustOfVar/man/gironde.Rd |only ClustOfVar-1.1/ClustOfVar/man/hclustvar.Rd | 147 +++--- ClustOfVar-1.1/ClustOfVar/man/kmeansvar.Rd | 137 +++--- ClustOfVar-1.1/ClustOfVar/man/mixedVarSim.Rd | 50 +- ClustOfVar-1.1/ClustOfVar/man/plot.clustab.Rd | 72 +-- ClustOfVar-1.1/ClustOfVar/man/plot.clustvar.Rd |only ClustOfVar-1.1/ClustOfVar/man/plot.hclustvar.Rd | 60 -- ClustOfVar-1.1/ClustOfVar/man/predict.clustvar.Rd | 49 -- ClustOfVar-1.1/ClustOfVar/man/print.clustab.Rd | 46 -- ClustOfVar-1.1/ClustOfVar/man/print.clustvar.Rd | 47 -- ClustOfVar-1.1/ClustOfVar/man/print.hclustvar.Rd | 45 -- ClustOfVar-1.1/ClustOfVar/man/protein.Rd |only ClustOfVar-1.1/ClustOfVar/man/rand.Rd | 65 +- ClustOfVar-1.1/ClustOfVar/man/stability.Rd | 86 +-- ClustOfVar-1.1/ClustOfVar/man/summary.clustab.Rd | 48 -- ClustOfVar-1.1/ClustOfVar/man/summary.clustvar.Rd | 72 +-- ClustOfVar-1.1/ClustOfVar/man/vnf.Rd | 11 ClustOfVar-1.1/ClustOfVar/man/wine.Rd | 56 +- 61 files changed, 1853 insertions(+), 1436 deletions(-)
Title: Probabilistic Population Projection
Description: Generating population projections for all countries of the world using several probabilistic components, such as total fertility rate and life expectancy.
Author: Hana Sevcikova, Adrian Raftery, Thomas Buettner
Maintainer: Hana Sevcikova <hanas@uw.edu>
Diff between bayesPop versions 6.0-4 dated 2017-02-10 and 6.1-1 dated 2017-08-12
ChangeLog | 13 ++ DESCRIPTION | 10 +- MD5 | 23 ++-- NAMESPACE | 11 +- R/pasfr.R |only R/predict.pop.R | 208 +++++++++++++++++++++++++++--------------- inst/CITATION | 44 ++++---- man/LifeTableMx.Rd | 5 - man/age.specific.migration.Rd | 2 man/bayesPop-package.Rd | 4 man/predict.pop.Rd | 2 man/project.pasfr.Rd |only src/bayesPop_init.c |only tests/test_functions.R | 1 14 files changed, 207 insertions(+), 116 deletions(-)
Title: Fetch 'Scholary' Full Text from 'Crossref'
Description: Text mining client for 'Crossref' (<https://crossref.org>). Includes
functions for getting getting links to full text of articles, fetching full
text articles from those links or Digital Object Identifiers ('DOIs'),
and text extraction from 'PDFs'.
Author: Scott Chamberlain [aut, cre]
Maintainer: Scott Chamberlain <myrmecocystus+r@gmail.com>
Diff between crminer versions 0.1.2 dated 2017-05-15 and 0.1.4 dated 2017-08-12
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 11 ++++++++++- README.md | 2 +- tests/testthat/test-crm_links.R | 4 ++-- 5 files changed, 20 insertions(+), 11 deletions(-)
Title: Process Biogas Data and Predict Biogas Production
Description: High- and low-level functions for processing biogas data and predicting biogas production. Molar mass and calculated oxygen demand (COD') can be determined from a chemical formula. Measured gas volume can be corrected for water vapor and to (possibly user-defined) standard temperature and pressure. Gas quantity can be converted between volume, mass, and moles. Gas composition, cumulative production, or other variables can be interpolated to a specified time. Cumulative biogas and methane production (and rates) can be calculated using volumetric, manometric, or gravimetric methods for any number of reactors. With cumulative methane production data and data on reactor contents, biochemical methane potential (BMP) can be calculated and summarized, including subtraction of the inoculum contribution and normalization by substrate mass. Cumulative production and production rates can be summarized in several different ways (e.g., omitting normalization) using the same function. Lastly, biogas quantity and composition can be predicted from substrate composition and additional, optional data.
Author: Sasha D. Hafner [aut, cre], Charlotte Rennuit [aut], Jin Mi Triolo [ctb], Ali Heidarzadeh Vazifehkhoran [ctb]
Maintainer: Sasha D. Hafner <sasha.hafner@eng.au.dk>
Diff between biogas versions 1.8.0 dated 2017-08-09 and 1.8.1 dated 2017-08-12
biogas-1.8.0/biogas/vignettes/framed.sty |only biogas-1.8.0/biogas/vignettes/siunitx.sty |only biogas-1.8.1/biogas/ChangeLog | 7 biogas-1.8.1/biogas/DESCRIPTION | 8 biogas-1.8.1/biogas/MD5 | 22 - biogas-1.8.1/biogas/NEWS | 8 biogas-1.8.1/biogas/inst/doc/biogas_quick_start.Rnw | 14 - biogas-1.8.1/biogas/inst/doc/biogas_quick_start.pdf |binary biogas-1.8.1/biogas/inst/doc/predBg_function.Rnw | 4 biogas-1.8.1/biogas/inst/doc/predBg_function.pdf |binary biogas-1.8.1/biogas/man/biogas-package.Rd | 210 +++++++++---------- biogas-1.8.1/biogas/vignettes/biogas_quick_start.Rnw | 14 - biogas-1.8.1/biogas/vignettes/predBg_function.Rnw | 4 13 files changed, 142 insertions(+), 149 deletions(-)
Title: A Tool for Automating Download and Preprocessing of MODIS Land
Products Data
Description: Allows automating the creation of time series of rasters derived
from MODIS Satellite Land Products data. It performs several typical
preprocessing steps such as download, mosaicking, reprojection and resize
of data acquired on a specified time period. All processing parameters
can be set using a user-friendly GUI. Users can select which layers of
the original MODIS HDF files they want to process, which additional
Quality Indicators should be extracted from aggregated MODIS Quality
Assurance layers and, in the case of Surface Reflectance products
, which Spectral Indexes should be computed from the original reflectance
bands. For each output layer, outputs are saved as single-band raster
files corresponding to each available acquisition date. Virtual files
allowing access to the entire time series as a single file are also created.
Command-line execution exploiting a previously saved processing options
file is also possible, allowing to automatically update time series
related to a MODIS product whenever a new image is available.
Author: Lorenzo Busetto [aut, cre],
Luigi Ranghetti [aut]
Maintainer: Lorenzo Busetto <lbusett@gmail.com>
Diff between MODIStsp versions 1.3.2 dated 2017-04-15 and 1.3.3 dated 2017-08-12
MODIStsp-1.3.2/MODIStsp/inst/ExtData/Diff_Prodopts.xml |only MODIStsp-1.3.2/MODIStsp/inst/ExtData/MODIStsp_ProdOpts_old_v1.3.1.xml |only MODIStsp-1.3.3/MODIStsp/DESCRIPTION | 13 MODIStsp-1.3.3/MODIStsp/MD5 | 103 MODIStsp-1.3.3/MODIStsp/NAMESPACE | 21 MODIStsp-1.3.3/MODIStsp/NEWS.md | 150 - MODIStsp-1.3.3/MODIStsp/R/MODIStest_check_md5.R |only MODIStsp-1.3.3/MODIStsp/R/MODIStsp.R | 353 +-- MODIStsp-1.3.3/MODIStsp/R/MODIStsp_GUI.R | 716 +++--- MODIStsp-1.3.3/MODIStsp/R/MODIStsp_addindex.R | 460 ++- MODIStsp-1.3.3/MODIStsp/R/MODIStsp_bbox_from_file.R | 79 MODIStsp-1.3.3/MODIStsp/R/MODIStsp_check_files.R | 54 MODIStsp-1.3.3/MODIStsp/R/MODIStsp_extract.R | 20 MODIStsp-1.3.3/MODIStsp/R/MODIStsp_install_launcher.R | 50 MODIStsp-1.3.3/MODIStsp/R/MODIStsp_lpdaac_accessoires.R | 356 +-- MODIStsp-1.3.3/MODIStsp/R/MODIStsp_process.R | 1162 +++++----- MODIStsp-1.3.3/MODIStsp/R/MODIStsp_process_QA_bits.R | 130 - MODIStsp-1.3.3/MODIStsp/R/MODIStsp_process_indexes.R | 155 - MODIStsp-1.3.3/MODIStsp/R/MODIStsp_vrt_create.R | 30 MODIStsp-1.3.3/MODIStsp/README.md | 343 +- MODIStsp-1.3.3/MODIStsp/build/vignette.rds |binary MODIStsp-1.3.3/MODIStsp/inst/CITATION | 33 MODIStsp-1.3.3/MODIStsp/inst/ExtData/Launcher/Batch/MODIStsp.bat | 5 MODIStsp-1.3.3/MODIStsp/inst/ExtData/Launcher/MODIStsp_launcher.R | 24 MODIStsp-1.3.3/MODIStsp/inst/ExtData/MODIStsp_ProdOpts.xml | 6 MODIStsp-1.3.3/MODIStsp/inst/Log |only MODIStsp-1.3.3/MODIStsp/inst/Test_files |only MODIStsp-1.3.3/MODIStsp/inst/doc/MODIStsp.R | 94 MODIStsp-1.3.3/MODIStsp/inst/doc/MODIStsp.Rmd | 523 +++- MODIStsp-1.3.3/MODIStsp/inst/doc/MODIStsp.pdf |binary MODIStsp-1.3.3/MODIStsp/man/MODIStest_check_md5.Rd |only MODIStsp-1.3.3/MODIStsp/man/MODIStsp.Rd | 24 MODIStsp-1.3.3/MODIStsp/man/MODIStsp_GUI.Rd | 6 MODIStsp-1.3.3/MODIStsp/man/MODIStsp_addindex.Rd | 72 MODIStsp-1.3.3/MODIStsp/man/MODIStsp_check_files.Rd | 20 MODIStsp-1.3.3/MODIStsp/man/MODIStsp_extract.Rd | 12 MODIStsp-1.3.3/MODIStsp/man/MODIStsp_process.Rd | 66 MODIStsp-1.3.3/MODIStsp/man/MODIStsp_process_QA_bits.Rd | 56 MODIStsp-1.3.3/MODIStsp/man/MODIStsp_process_indexes.Rd | 32 MODIStsp-1.3.3/MODIStsp/man/MODIStsp_vrt_create.Rd | 16 MODIStsp-1.3.3/MODIStsp/man/bbox_from_file.Rd | 5 MODIStsp-1.3.3/MODIStsp/man/install_MODIStsp_launcher.Rd | 32 MODIStsp-1.3.3/MODIStsp/man/lpdaac_getmod_dates.Rd | 4 MODIStsp-1.3.3/MODIStsp/man/lpdaac_getmod_dirs.Rd | 2 MODIStsp-1.3.3/MODIStsp/man/lpdaac_getmod_names.Rd | 12 MODIStsp-1.3.3/MODIStsp/tests |only MODIStsp-1.3.3/MODIStsp/vignettes/Figure_1_Vignette.png |binary MODIStsp-1.3.3/MODIStsp/vignettes/Figure_2_new.png |binary MODIStsp-1.3.3/MODIStsp/vignettes/Figure_3.png |binary MODIStsp-1.3.3/MODIStsp/vignettes/MODIStsp.Rmd | 523 +++- MODIStsp-1.3.3/MODIStsp/vignettes/figure_4.png |binary 51 files changed, 3363 insertions(+), 2399 deletions(-)