1402 days ago
GROMACS: a versatile package to perform molecular dynamics
GROMACS is a versatile package to perform molecular dynamics, i.e simulate the Newtonian equations of m...R GROMACS web portal combines the versatility of this molecular dynamics package with the calculation power of...1395 days ago
SEASTAR: Systematic Evaluation of Alternative STArt site in RNA
...Alternative STArt site in RNA) is a software package for Transcription Start Site...with known TSSs from a public database. This package enables high-quality TSS iden...he highly sophisticated CAGE technology. This package is particularly useful for fi...1388 days ago
proActiv: Estimation of Promoter Activity from RNA-Seq data
proActiv is an R package that estimates promoter activity from RNA-Seq data. proActiv uses aligned...nput, and provides absolute and relative promoter activity as output. The package can be used to identify activ...1388 days ago
SHAMAN: a user-friendly website for metataxonomic analysis from raw reads to statistical analysis
...reatment is based on Vsearch [Rognes 2016] which showed to be both accurate and fast [Wescott 2015].The statistical analysis is based on DESeq2 R package [Anders and Huber 2010] which...1385 days ago
Platypus – R package for object detection and image segmentation.
platypus is an R package for object detection and semantic segmentation...n of platypus with remotes package: remotes::install_gith...stall keras and tensorflow packages and Tensorflow ver...1301 days ago
CRBHits: From Conditional Reciprocal Best Hits to Codon Alignments and Ka/Ks in R
...gorithm crb-blast and covers all necessary steps from sequence similarity searches, codon alignments to Ka/Ks calculations and synteny. The new R package targets ecology, population a...1298 days ago
DnaSP: DNA Sequence Polymorphism, is a software package for the analysis of DNA polymorphisms
DnaSP, DNA Sequence Polymorphism, is a software package for the analysis of DNA polymorphisms using data from a single locus (a multiple sequence aligned -MSA data), or from several l...1284 days ago
maftools : Summarize, Analyze and Visualize MAF Files
...ncer type being over 200. Resulting data consisting of somatic variants are stored in the form of Mutation Annotation Format. This package attempts to summarize, analyz...1256 days ago
gggenomes: A grammar of graphics for comparative genomics
gggenomes is a versatile graphics package for comparative genomics. It extends the popular R visualization packageggplot2 by adding dedicated plot functions for genes, syntenic regions, etc. and verbs to manipulate the plot to, for example, quickly zoom in into gene neighborhoods.1216 days ago