jun305's Stars
Arkadiy-Garber/FeGenie
HMM-based identification and categorization of iron genes and iron gene operons in genomes and metagenomes
hbucqp/ResBlaster
find antimicrobial resistance/ virulence genes in assembled genomes
ChiLiubio/microeco
An R package for data analysis in microbial community ecology
CharlesHahn/DuIvyTools
A Tool to process and visualize the results of molecular dynamics simulations(GROMACS).
tubiana/protocolGromacs
Automatic gromacs protocol from preparation to production with ligand parametrization through
Valdes-Tresanco-MS/AMDock
(Linux and macOS) AMDock: Assisted molecular docking with AutoDock4 and AutoDockVina
isabelschober/proteinortho_curves
Draw pan- and core-genome curves from proteinortho output
schneebergerlab/plotsr
Tool to plot synteny and structural rearrangements between genomes
schneebergerlab/syri
Synteny and Rearrangement Identifier
arpcard/rgi
Resistance Gene Identifier (RGI). Software to predict resistomes from protein or nucleotide data, including metagenomics data, based on homology and SNP models.
phac-nml/staramr
Scans genome contigs against the ResFinder, PlasmidFinder, and PointFinder databases.
YaoLab-Bioinfo/shinyCircos
an R/shiny application for creation of Circos plot interactively
griffithlab/rnaseq_tutorial
Informatics for RNA-seq: A web resource for analysis on the cloud. Educational tutorials and working pipelines for RNA-seq analysis including an introduction to: cloud computing, critical file formats, reference genomes, gene annotation, expression, differential expression, alternative splicing, data visualization, and interpretation.
apredeus/multi-bacpipe
A convenient pipeline for processing of multi-strain bacterial RNA-Seq experiments
Frahiriart/prokfold
RNA-seq pipeline for prokaryote
PoeticPremium6/RNA-SEQ--Raw-reads-to-Counts
A variety of RNA-Seq pipelines are presented: Tuxedo for bacteria, Tuxedo for Humans, and HISAT2 for Humans. Additionally, you can find scripts for normalization of RNA-Seq Counts and scripts for visualization of DEGs
gxcuizy/Python
Python3编写的各种大小程序,包含从零学Python系列、12306抢票、省市区地址库以及系列网站爬虫等学习源码
lh3/bioawk
BWK awk modified for biological data
marekborowiec/AMAS
Calculate summary statistics and manipulate multiple sequence alignments
ChrisCreevey/catsequences
A tool for concatenating multiple fasta alignments for supermatrix phylogenetic analyses
jvollme/PO_2_MLSA
Enables the calculation of phylogenies based on single copy core genome gene products, based on bidirectional BLAST results obtained with proteinortho
aleimba/bac-genomics-scripts
Collection of scripts for bacterial genomics
metagenlab/locus2genoplotr
Plot bacterial gene maps and genome comparison plots from command line with genoPlotR and GenomeDiagram
moshi4/pyGenomeViz
A genome visualization python package for comparative genomics
thackl/gggenomes
A grammar of graphics for comparative genomics
wilkox/gggenes
➡️️➡️️⬅️️➡️️ Draw gene arrow maps in ggplot2
medema-group/BiG-SCAPE
Similarity networks of biosynthetic gene clusters
nuzla/Pangenome-Graphs-Workshop
This repository contains material to construct pangenome graphs for a small bacteria dataset detailing every step in the Nesi environment.
alipirani88/snpkit
Modular workflow for Microbial Variant Calling and SNP diagnostics.
lmc297/SNPBac
SNP and variant calling pipeline for bacteria