Search results

Standardize the filtering and processing options

enhancementImprovement of the existing featuresImprovement of the existing features

Status: Open.

Feature

#189 In sanger-tol/readmapping;

· muffato opened on Nov 28, 2025

Implement sanger-tol cramalign for Illumina and long read data

enhancementImprovement of the existing featuresImprovement of the existing features

Status: Open.

Task

#187 In sanger-tol/readmapping;

· sainsachiko opened on Oct 3, 2025

Standardize file naming convention

enhancementImprovement of the existing featuresImprovement of the existing features

questionFurther information is requestedFurther information is requested

Status: Open.

Task

#182 In sanger-tol/readmapping;

· sainsachiko opened on Aug 22, 2025

Should we use asm5 option for minimap2

help wantedOpen to anyone interestedOpen to anyone interested

questionFurther information is requestedFurther information is requested

Status: Open.

Task

#168 In sanger-tol/readmapping;

· sainsachiko opened on Jun 3, 2025

Include FastK k-mer histogram files/db for GenomeScope and related tools

enhancementImprovement of the existing featuresImprovement of the existing features

good first issueGood for newcomersGood for newcomers

Status: Open.

Feature

#167 In sanger-tol/readmapping;

· sainsachiko opened on Jun 3, 2025

Generate Hi-C insert length distribution plots from BAM/CRAM

Status: Open.

Feature

#166 In sanger-tol/readmapping;

· sainsachiko opened on Jun 3, 2025

Generate samtools stats with Standard Flags (_F0x900.stats, _F0xB00.stats) for Illumina Data QC

enhancementImprovement of the existing featuresImprovement of the existing features

featureRequests for new featuresRequests for new features

Status: Open.

Feature

#165 In sanger-tol/readmapping;

· sainsachiko opened on Jun 3, 2025

Investigate impacts of read filtering on PacBio data

enhancementImprovement of the existing featuresImprovement of the existing features

questionFurther information is requestedFurther information is requested

Status: Open.

Feature

#163 In sanger-tol/readmapping;

· sainsachiko opened on Jun 3, 2025

Review duplicate-marking vs merging

enhancementImprovement of the existing featuresImprovement of the existing features

questionFurther information is requestedFurther information is requested

Status: Open.

Task

#160 In sanger-tol/readmapping;

· muffato opened on May 16, 2025

Methylation calls

enhancementImprovement of the existing featuresImprovement of the existing features

questionFurther information is requestedFurther information is requested

user requestRequests made by users and publicRequests made by users and public

Status: Open.

Feature

#159 In sanger-tol/readmapping;

· muffato opened on May 16, 2025

Use CRAM as the intermediate format, rather than BAM

help wantedOpen to anyone interestedOpen to anyone interested

questionFurther information is requestedFurther information is requested

Status: Open.

Task

#157 In sanger-tol/readmapping;

· muffato opened on Apr 25, 2025

Include <code>samtools merge</code> in the "sormadup" super-module

good first issueGood for newcomersGood for newcomers

help wantedOpen to anyone interestedOpen to anyone interested

Status: Open.

Task

#156 In sanger-tol/readmapping;

· muffato opened on Apr 25, 2025