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bismark optimization

enhancement

Status: Open.

#201 In BIMSBbioinfo/pigx_bsseq;

· alexg9010 opened on Nov 13, 2025

new duplicate marking tool

Status: Open.

#198 In BIMSBbioinfo/pigx_bsseq;

· alexg9010 opened on Mar 19, 2025

Error in getTabixByChunk

Status: Open.

#190 In BIMSBbioinfo/pigx_bsseq;

· fafaris39 opened on Mar 31, 2023

possibility to quickly rerun given target, without all upstream rules

Status: Open.

#188 In BIMSBbioinfo/pigx_bsseq;

· alexg9010 opened on Oct 6, 2022

forced rerun not possible with write-protected output

bug

Status: Open.

#187 In BIMSBbioinfo/pigx_bsseq;

· alexg9010 opened on Oct 6, 2022

steps to run make distcheck via Github actions take quite long with caching

Status: Open.

#186 In BIMSBbioinfo/pigx_bsseq;

· alexg9010 opened on Sep 7, 2022

Consider option to add spike-in genome for calculation of bisulfite conversion rate

Status: Open.

#185 In BIMSBbioinfo/pigx_bsseq;

· alexg9010 opened on Aug 11, 2022

Catch error during final report rendering when refgene and cpgislandfile are not given

Status: Open.

#184 In BIMSBbioinfo/pigx_bsseq;

· alexg9010 opened on Aug 10, 2022

Use <code>asis</code> engine for conditional printing of markdown chunks

Status: Open.

#182 In BIMSBbioinfo/pigx_bsseq;

· alexg9010 opened on Aug 2, 2022

try unit test generation feature of snakemake

Status: Open.

#180 In BIMSBbioinfo/pigx_bsseq;

· alexg9010 opened on May 13, 2022

describe how to get gene prediction files from ucsc table browser or link to source where it is described

Status: Open.

#179 In BIMSBbioinfo/pigx_bsseq;

· alexg9010 opened on Nov 29, 2021

allow users to fetch other ucsc gene prediction tables

Status: Open.

#178 In BIMSBbioinfo/pigx_bsseq;

· alexg9010 opened on Nov 29, 2021