ShadowCaster: a hybrid approach for the detection of horizontal gene transfer events in prokaryotes
ShadowCaster implements an evolutionary model to calculate Bayesian likelihoods for each ‘alien genes’ with an unusual sequence...1455 days ago
wgd—simple command line tools for the analysis of ancient whole-genome duplications
wgd is a easy to use command-line tool for KS distribution construction named wgd. The wgd suite provides commonly used KS and colinearity analysis workflows together with tools...1446 days ago
PyParanoid: a pipeline for rapid identification of homologous gene families in a set of genomes
...ilies in a set of genomes - a central task of any comparative genomics analysis. The "gold standard" for iden...e reciprocal best hits (RBHs) which depends on performing a all-vs-all sequence comparison, usually using BLA...1425 days ago
1425 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,...eted metagenomics, statistical analysis and results visualization wit...[Wescott 2015].The statistical analysis is based on DESeq2 R package...andard formats for metagenomic analysis (.csv, .tsv, .biom) and figur...1421 days ago
SqueezeMeta: a fully automated metagenomics pipeline, from reads to bins
SqueezeMeta is a full automatic pipeline for metagenomics/metatranscriptomics, covering all steps of the analysis. SqueezeMeta includes multi-m...1421 days ago
parallelLastz: Lastz with multi-threads support.
Running Lastz (https://github.com/lastz/lastz) in parallel mode. This program is for single computer with multiple c...l when you lastz a big query file to a huge reference like human whole genome sequence...1416 days ago
1414 days ago
1413 days ago
RosettaAntibodyDesign (RAbD): A general framework for computational antibody design
...their project needs. The algorithm is meant to sample the diverse sequence, structure, and binding space...manipulate function. The framework is based on rigorous bioinformatic analysis and rooted very much on our&n...1387 days ago