NucDiff: In-depth characterization and annotation of differences between two sets of DNA sequences
NucDiff locates and categorizes differences between two closely related nucleotide sequenc...ization and further inspection. It was written in Python and uses the NUCmer package from MUMmer[1] for sequence c...1490 days ago
LR_Gapcloser: a tiling path-based gap closer that uses long reads to complete genome assembly
LR_Gapcloser is a gap closing tool using long reads from studied species. The long rea...y are fragmented and aligned to scaffolds using BWA mem algorithm in BWA package. In the package, we provided a compiled bwa,...1481 days ago
Genobuntu: Package for Next Generation Sequencing and Genome Assembly
Genobuntu is a software package containing more than 70 software and packages oriented towards NGS. In its current version, Genobuntu supports pre assembly tools, genome assemblers as well as post assem...1477 days ago
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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...1396 days ago
SEASTAR: Systematic Evaluation of Alternative STArt site in RNA
SEASTAR (Systematic Evaluation of Alternative STArt site in RNA) is a software package for Transcription Start Site...wn TSSs from a public database. This package enables high-quality TSS iden...sophisticated CAGE technology. This package is particularly useful for fi...1390 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...1390 days ago
SHAMAN: a user-friendly website for metataxonomic analysis from raw reads to statistical analysis
SHAMAN is a shiny application for differential analysis of metagenomic data (16S, 18S, 23S...curate and fast [Wescott 2015].The statistical analysis is based on DESeq2 R package [Anders and Huber 2010] which...1386 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...1302 days ago
CRBHits: From Conditional Reciprocal Best Hits to Codon Alignments and Ka/Ks in R
CRBHits is a coding sequence (CDS) analysis pipeline in R (R Core Team, 2019). It reimplem...rity searches, codon alignments to Ka/Ks calculations and synteny. The new R package targets ecology, population a...1299 days ago