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labgem
ppanggolin

Build a partitioned pangenome graph from microbial genomes

8K 298 29
pioreactor
pioreactor

Hardware and software for accessible, extensible, and scalable bioreactors. Built on Raspberry Pi.

5K 140 16
Ecogenomics
gtdbtk

A toolkit for assigning objective taxonomic classifications to bacterial and archaeal genomes.

3K 593 97
oschwengers
bakta

Rapid & standardized annotation of bacterial genomes, MAGs & plasmids

3K 636 77
B-UMMI
chewbbaca

BSR-Based Allele Calling Algorithm

2K 149 32
prophyle
prophyle

Accurate, resource-frugal and deterministic DNA sequence classifier.

2K 36 5
fuzue
pykinbiont

Python interface for KinBiont.jl microbial kinetics analysis

1K 0 0
deprekate
prfect

Software to predict the occurence of programmed ribosomal frameshifting in bacterial, phage, and viral genomes

780 9 2
AdmiralenOla
scoary

Pan-genome wide association studies

737 216 34
xthua
bacant

This program is designed for annotation of antimicrobal resistance(AMR), transposon(Tn) and integron(In) in bacteria

554 21 7
johnlees
poppunk

PopPUNK 👨‍🎤 (POPulation Partitioning Using Nucleotide Kmers)

545 108 22
sap218
acidoseq

Studying Acidobacteria reads

333 0 0
Danderson123
amira-amr

A tool to detect acquired AMR genes directly from long read sequencing data.

331 28 2
oschwengers
cb-platon

Identification & characterization of bacterial plasmid-borne contigs from short-read draft assemblies.

297 121 15
B-UMMI
chewbbaca-nserver

BSR-Based Allele Calling Algorithm

280 149 32
scbirlab
crispio

🌱 Designing CRISPRi experiments in bacteria

248 0 1
neherlab
pypangraph

A bioinformatic toolkit to align genome assemblies into pangenome graphs

196 124 6
oschwengers
tadrep

Targeted Detection and Reconstruction of Plasmids

178 22 1
lmc297
sismis

Secretion system discovery tool.

137 3 0
voorloopnul
decouphage

The art of decorating a phage genome by gluing feature cutouts into it.

120 5 2
ncrna
pathogentrack

A pipeline to identify pathogenic microorganisms from scRNA-seq raw data.

110 31 8
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