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This project contains all scripts and descriptions to enable the execution of a streamlined pipeline that processes A-seq2 read libraries up to the reporting of individual and clustered 3' end processing sites.

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

☕ 🐍 🔬 Package for processing metadata from various light-microscopy related data formats.

Metagenomics pipeline for human microbiome analysis with SnakeMake and singularity containers.

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

Material and data for the workshop in South Africa (2018)

Copy of of the original IPLT repository

Copy of of the original IPLT repository

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

MIRZA-G pipeline code written for Jobber.