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gentb-site
gentb-site PublicThe genTB project, the Django site, variant calling and prediciton pipeline, and mapping pipeline with hooks to two ravens
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mtb-illumina-wgs-evaluation
mtb-illumina-wgs-evaluation PublicRepository for analysis of Benchmarking the accuracy of short-read sequencing across the M. tuberculosis genome, 2022, Bioinformatics.
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- tbp-severity-scoring Public
farhat-lab/tbp-severity-scoring’s past year of commit activity - mtb-pg-benchmarking-2024paper Public
All code for data processing and analysis described in "Analysis of the limited M. tuberculosis pangenome reveals potential pitfalls of pan-genome analysis approaches" (Marin-2024)
farhat-lab/mtb-pg-benchmarking-2024paper’s past year of commit activity - JM_espA_modeling Public
This repository contains the codes of Jiazheng Miao's (MBI Class of 2025) Capstone Project, a mathematical modeling on the expression level of espA in Mycobacterium tuberculosis.
farhat-lab/JM_espA_modeling’s past year of commit activity - gentb-snakemake Public
From FASTQ file to antibiotic resistance prediction using RandomForest - the GenTB pipeline wrapped in snakemake
farhat-lab/gentb-snakemake’s past year of commit activity - DependentMutations Public
farhat-lab/DependentMutations’s past year of commit activity - phase-variation-in-Mtbc Public
Jupyter Notebooks used in data analysis for "Phase variation as a major mechanism of adaptation in Mycobacterium tuberculosis complex" (Vargas et al. 2023)
farhat-lab/phase-variation-in-Mtbc’s past year of commit activity - in-host-Mtbc-dynamics Public
Jupyter Notebooks used in data analysis for "In-host population dynamics of Mycobacterium tuberculosis complex during active disease" (Vargas et al. 2021)
farhat-lab/in-host-Mtbc-dynamics’s past year of commit activity - epistasis-KAN-BDQ-Mtbc-resistance Public
Jupyter Notebooks used in data analysis for "The role of epistasis in amikacin, kanamycin, bedaquiline, and clofazimine resistance in Mycobacterium tuberculosis complex" (Vargas et al. 2021)
farhat-lab/epistasis-KAN-BDQ-Mtbc-resistance’s past year of commit activity - gentb-site Public
The genTB project, the Django site, variant calling and prediciton pipeline, and mapping pipeline with hooks to two ravens
farhat-lab/gentb-site’s past year of commit activity
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