Package: mlgt
Type: Package
Title: Multi-Locus Geno-Typing
Version: 0.16
Date: 2012-03-26
Author: Dave T. Gerrard
Maintainer: Dave T. Gerrard <david.gerrard@manchester.ac.uk>
Description: Processing and analysis of high throughput (Roche 454)
sequences generated from multiple loci and multiple biological
samples. Sequences are assigned to their locus and sample of
origin, aligned and trimmed. Where possible, genotypes are
called and variants mapped to known alleles.
License: GPL (>= 2)
LazyLoad: yes
Depends: R (>= 2.13.0), methods, seqinr
Suggests: snowfall
URL: http://personalpages.manchester.ac.uk/staff/David.Gerrard/
Collate: 'mlgt.R'
Packaged: 2012-03-26 12:17:22 UTC; Dave
Repository: CRAN
Date/Publication: 2012-03-26 13:20:25
Package: DCODE
Type: Package
Title: List Linear n-Peptide Constraints for Overlapping Protein
Regions
Version: 1.0
Date: 2016-03-10
Author: Sophie Lebre
Maintainer: Sophie Lebre <sophie.lebre@umontpellier.fr>
Depends: R (>= 3.1.0), seqinr
Description: Traversal graph algorithm for listing linear n-peptide constraints for overlapping protein regions. (Lebre and Gascuel, The combinatorics of overlapping genes, freely available from arXiv at : http://arxiv.org/abs/1602.04971).
License: GPL (>= 2)
LazyLoad: yes
LazyData: no
NeedsCompilation: no
Packaged: 2016-03-10 09:55:21 UTC; sophie
Repository: CRAN
Date/Publication: 2016-03-10 17:55:18
Package: LSPFP
Type: Package
Title: Lysate and Secretome Peptide Feature Plotter
Version: 1.0.0
Date: 2016-05-13
Author: Rafael Dellen, with contributions of Fabian Kruse
Maintainer: Rafael Dellen <Rafael.Dellen@uni-duesseldorf.de>
Description: Creates plots of peptides from shotgun proteomics analysis of secretome and lysate samples. These plots contain associated protein features and scores for potential secretion and truncation.
License: GPL-3
Depends: seqinr, RCurl, data.table, bit64
Imports: tcltk2, R.utils, graphics, grDevices, stats, utils
NeedsCompilation: no
Packaged: 2016-05-19 10:46:48 UTC; dellen
Repository: CRAN
Date/Publication: 2016-05-19 16:35:29
Package: CNOGpro
Type: Package
Title: Copy Numbers of Genes in prokaryotes
Version: 1.1
Date: 2015-01-12
Author: Ola Brynildsrud, Lars-Gustav Snipen
Maintainer: Ola Brynildsrud <ola.brynildsrud@nmbu.no>
Description: Methods for assigning copy number states and breakpoints in resequencing experiments of prokaryotic organisms.
License: GPL-2
Depends: seqinr
Packaged: 2015-01-12 15:18:49 UTC; olabrynildsrud
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-01-12 23:06:41
Package: caRpools
Type: Package
Title: CRISPR AnalyzeR for Pooled CRISPR Screens
Version: 0.83
Date: 2015-12-06
Author: Jan Winter, Florian Heigwer
Maintainer: Jan Winter <jan.winter@dkfz-heidelberg.de>
Description: CRISPR-Analyzer for pooled CRISPR screens (caRpools) provides an end-to-end analysis of CRISPR screens including quality control, hit candidate analysis, visualization and automated report generation using R markdown. Needs MAGeCK (http://sourceforge.net/p/mageck/wiki/Home/), bowtie2 for all functions. CRISPR (clustered regularly interspaced short palindromic repeats) is a method to perform genome editing. See <https://en.wikipedia.org/wiki/CRISPR> for more information on
CRISPR.
Depends: R (>= 3.1.0)
Imports:
rmarkdown,VennDiagram,DESeq2,sm,biomaRt,seqinr,scatterplot3d,xlsx
Suggests: BiocGenerics, knitr, stringi
SystemRequirements: MAGeCK (=0.51, from
http://sourceforge.net/p/mageck/wiki/Home/), bowtie2
(http://bowtie-bio.sourceforge.net/bowtie2/index.shtml)
License: GPL
URL: http://www.crispr-analyzer.de
https://github.com/boutroslab/caRpools
BugReports: https://github.com/boutroslab/caRpools
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2015-12-05 18:38:31 UTC; janwinter
Repository: CRAN
Date/Publication: 2015-12-06 13:31:59
Package: rPlant
Version: 2.16
Date: 2016-04-01
Title: Interface to the Agave API
Author: Barb Banbury <darwinthesun@gmail.com> and Kurt Michels <kamichels@math.arizona.edu>, Jeremy M. Beaulieu <jeremy.beaulieu@yale.edu>, Brian O'Meara <bomeara@utk.edu>
Maintainer: Kurt Michels <kamichels@math.arizona.edu>
Depends: R (>= 2.13.0), rjson, RCurl, seqinr
LazyData: yes
Repository/R-Forge/Project: rPlant
BugReports: https://r-forge.r-project.org/tracker/?group_id=1328
Description: Provides an interface to the the many computational resources iPlant offers through their RESTful application programming interface, see <http://www.iplantcollaborative.org/> for more information about iPlant, and <http://www.iplantcollaborative.org/ci/iplant-science-apis> for its APIs. Currently, 'rPlant' functions interact with the iPlant Agave API, the Taxonomic Name Resolution Service API, and the Phylotastic Taxosaurus API. Before using 'rPlant', users will have to register with the iPlant Collaborative. See <http://agaveapi.co/> for more information on the Agave API and <http://user.iplantcollaborative.org/> to register with iPlant.
URL: http://www.iplantcollaborative.org/discover/discovery-environment
License: GPL (>= 2)
NeedsCompilation: no
Packaged: 2016-04-01 22:15:11 UTC; michels
Repository: CRAN
Date/Publication: 2016-04-03 16:38:09
providing 
.