TORCH-Consortium/MAGMA

A pipeline for comprehensive genomic analyses of Mycobacterium tuberculosis with a focus on clinical decision making as well as research

Language: Nextflow - Size: 16.6 MB - Last synced: 1 day ago - Pushed: 2 days ago - Stars: 11 - Forks: 1

jodyphelan/TBProfiler

Profiling tool for Mycobacterium tuberculosis to detect ressistance and strain type from WGS data

Language: Python - Size: 8.62 MB - Last synced: 6 days ago - Pushed: 6 days ago - Stars: 88 - Forks: 40

nf-core/tbanalyzer

An nf-core (meta) pipeline for analysis of different members of Mycobacterium tuberculosis complex.

Language: Nextflow - Size: 297 KB - Last synced: 10 days ago - Pushed: 10 days ago - Stars: 3 - Forks: 0

mycobactopia-org/MTBseq-nf

MTBSeq made simple and easy using Nextflow and nf-core standard.

Language: Nextflow - Size: 8.77 MB - Last synced: 15 days ago - Pushed: 16 days ago - Stars: 8 - Forks: 1

a-r-j/TB-Resources

List of online databases and resources for Mycobacterium Tuberculosis

Size: 10.7 KB - Last synced: 18 days ago - Pushed: about 5 years ago - Stars: 1 - Forks: 1

BCCDC-PHL/tb-db

Database for storage of M. tuberculosis genomics analysis results

Language: Python - Size: 2.82 MB - Last synced: about 1 month ago - Pushed: 8 months ago - Stars: 3 - Forks: 1

jananiravi/sigmafactor-network-mtb

2016 Sigma factor network in M. tuberculosis | https://jananiravi.github.io/publication/2016/natcomm/

Language: R - Size: 3.59 MB - Last synced: 2 months ago - Pushed: about 5 years ago - Stars: 0 - Forks: 0

MaryAgopian/Variant_Barcoding_M.orygis

Variant barcoding pipeline using single nucleotide polymorphisms (SNPs) for the generation of M. orygis standardised markers for diagnostic and epidemiological use.

Language: R - Size: 55.7 KB - Last synced: 2 months ago - Pushed: about 2 years ago - Stars: 0 - Forks: 0

farhat-lab/fast-lineage-caller

Language: Python - Size: 3.1 MB - Last synced: 3 days ago - Pushed: almost 3 years ago - Stars: 12 - Forks: 4

dbespiatykh/RDscan

A snakemake workflow for regions of difference discovery in Mycobacterium tuberculosis complex (MTBC) samples

Language: Python - Size: 79.4 MB - Last synced: 3 months ago - Pushed: 3 months ago - Stars: 3 - Forks: 1

jananiravi/papers

Size: 42.3 MB - Last synced: 2 months ago - Pushed: 5 months ago - Stars: 0 - Forks: 1

PulmonomicsLab/mcdr-mtb-standalone

Multi-class classification of drug resistance in MTB clinical isolates

Language: Shell - Size: 5.56 MB - Last synced: 4 months ago - Pushed: 4 months ago - Stars: 0 - Forks: 0

nottwy/TB-DROP

Deep Learning-based A Tool used to Drug Resistance Prediction of Mycobacterium tuberculosis Utilizing Whole Genome Mutations

Language: Python - Size: 17.3 MB - Last synced: 6 months ago - Pushed: 6 months ago - Stars: 0 - Forks: 0

mbhall88/tbpore

Mycobacterium tuberculosis genomic analysis from Nanopore sequencing data

Language: Python - Size: 3.3 MB - Last synced: 17 days ago - Pushed: 7 months ago - Stars: 11 - Forks: 2

safinaARK/MTB-VCF

Multipurpose tool for targeted variant calling of genetic polymorphisms in Mycobacterium Tuberculosis

Language: C - Size: 52.2 MB - Last synced: 7 months ago - Pushed: 7 months ago - Stars: 2 - Forks: 0

ngs-fzb/MTBseq_source

MTBseq is an automated pipeline for mapping, variant calling and detection of resistance mediating and phylogenetic variants from illumina whole genome sequence data of Mycobacterium tuberculosis complex isolates.

Language: Perl - Size: 193 MB - Last synced: 7 months ago - Pushed: 9 months ago - Stars: 33 - Forks: 20

dcouvin/SpolLineages

Rapid and precise prediction of Mycobacterium tuberculosis complex families

Language: Java - Size: 27.4 MB - Last synced: 7 months ago - Pushed: over 1 year ago - Stars: 6 - Forks: 0

dbespiatykh/TBvar

Variant detection and lineage barcoding of Mycobacterium tuberculosis

Language: Python - Size: 128 MB - Last synced: 7 months ago - Pushed: about 1 year ago - Stars: 0 - Forks: 0

mbhall88/tubby-manuscript

Manuscript for our work training and evaluating a Mycobacterium tuberculosis-specific Nanopore basecalling model

Language: HTML - Size: 876 KB - Last synced: 9 months ago - Pushed: over 2 years ago - Stars: 0 - Forks: 0

dmnfarrell/mtbdiff

Characterization of Mycobacterium tuberculosis complex species using mummer and nucdiff

Language: Jupyter Notebook - Size: 14.7 MB - Last synced: 18 days ago - Pushed: over 4 years ago - Stars: 4 - Forks: 2

dbespiatykh/tblg

A command-line tool to genotype Mycobacterium tuberculosis lineage from a VCF file

Language: Python - Size: 40 KB - Last synced: about 1 month ago - Pushed: about 1 year ago - Stars: 1 - Forks: 0

HKU-BAL/ONT-TB-NF

Comprehensive pipeline for detection of TB from ONT adaptive sequencing and amplicon data.

Language: Nextflow - Size: 1.89 MB - Last synced: about 1 year ago - Pushed: over 1 year ago - Stars: 2 - Forks: 0