All Published Workflows

2 workflows that have been reviewed and published

mtb-call
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M. tuberculosis variant identification (deprecated 2023). Use: https://github.com/ksw9/mtb-vars
public

public

Snakemake pipeline for M. tuberculosis variant identification from short-read data, mapping with bwa, variant identificat...
TSV Sample annotation Genetic mapping Report tabix BCFtools mosdepth Sambamba Snakemake snpEff Trim_Galore Genetic variation
Free
13
analysis_of_multi_way_chromatin_interactions_from_
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Analysis of multi-way chromatin interactions from very long sequencing reads
public

public

The thesis is focused on the concept of “chromosomal walks” introduced by Olivares-Chauvet et al., 2016. These chromosomal wa...
TSV paired sequencing data Expression analysis Filtering Plot BEDTools Biopython Bowtie 2 Pandas SAMtools Snakemake intervaltree matplotlib networkx numpy pysam scipy seaborn De Novo
Free
17