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A public repository of the study "The sputum microbiome in pulmonary tuberculosis and its association with disease manifestations: a cross-sectional study within a prospective human cohort in Tanzania (TB-DAR)".

Associated publication: https://doi.org/10.3389/fmicb.2021.633396

MIRZA-G pipeline code written for Jobber.

Tools to import models of the Wilkins group (Tara) to ModelArchive

Tools/ code/ Dockerfiles... used to convert user projects into ModelCIF for upload to ModelArchive. Grown over time/ with every project.

ImageJ-macro to batch analyse all PSF images in a folder

Benchmark pipelines for the ProMod3 modelling engine

Generates an ASCII-style pileup of read alignments in one or more BAM files against one or more regions specified in a BED file

Fork of the cathsm-server repo (https://github.com/CATH-SWISSMODEL/cathsm-server) for the tutorial "Beyond the usual Docker tutorial - Web apps & CI" at [BC]^2 Conference 2021

Python tool to reduce size and redundancy of phylogenetic datasets

Django web framework workshop, Monday 29th June from 10:15 to 12:00 in the sky lounge.

Copy of of the original IPLT repository

scripts, pipelines and documentation to run PAQR and KAPAC

KAPAC allows to infer regulatory sequence motifs implicated in 3’ end processing changes

PAQR enables the quantification of poly(A) site usage from standard RNA-seq data

TACOS is a diverse Set Of Commands And Tools (SOCAT, but TACOS sounds much better!).

Comparative assessment of methods for the computational inference of transcript isoform from RNA-seq data. Submitted to Genome Biology (03-2015).