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Compatibility with the new specimen,datatype,run samplesheets

enhancementImprovement of the existing featuresImprovement of the existing features

Status: Open.

Feature

#145 In sanger-tol/variantcalling;

· muffato opened on Feb 19, 2026

·  

v1.2.0

Remove 'Process VCF'

maintainTasks to keep pipelines up to dateTasks to keep pipelines up to date

Status: Open.

Task

#132 In sanger-tol/variantcalling;

· yz533cb opened on Sep 1, 2025

·  

v1.2.0

Macos container support

help wantedOpen to anyone interestedOpen to anyone interested

Status: Open.

Bug

#93 In sanger-tol/variantcalling;

· tkchafin opened on Dec 16, 2024

Variant density

questionFurther information is requestedFurther information is requested

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

wontfixThis will not be worked onThis will not be worked on

Status: Open.

Feature

#82 In sanger-tol/variantcalling;

· muffato opened on Jun 10, 2024

Compress the .pi output

good first issueGood for newcomersGood for newcomers

wontfixThis will not be worked onThis will not be worked on

Status: Open.

Task

#75 In sanger-tol/variantcalling;

· muffato opened on Apr 3, 2024

·  

v1.2.0

Runs of Homozygosity

questionFurther information is requestedFurther information is requested

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

wontfixThis will not be worked onThis will not be worked on

Status: Open.

Feature

#64 In sanger-tol/variantcalling;

· muffato opened on Dec 11, 2023

·  

v1.2.0

Calculate allele frequency

questionFurther information is requestedFurther information is requested

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

wontfixThis will not be worked onThis will not be worked on

Status: Open.

Feature

#49 In sanger-tol/variantcalling;

· priyanka-surana opened on Jul 21, 2023

·  

v1.2.0

Structural variation

questionFurther information is requestedFurther information is requested

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

Status: Open.

Feature

#47 In sanger-tol/variantcalling;

· priyanka-surana opened on Jun 27, 2023

Heterozygous sites across genome

questionFurther information is requestedFurther information is requested

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

wontfixThis will not be worked onThis will not be worked on

Status: Open.

Feature

#42 In sanger-tol/variantcalling;

· priyanka-surana opened on Jun 27, 2023

·  

v1.2.0

Calculate InDel size distribution

questionFurther information is requestedFurther information is requested

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

wontfixThis will not be worked onThis will not be worked on

Status: Open.

Feature

#41 In sanger-tol/variantcalling;

· priyanka-surana opened on Jun 27, 2023

·  

v1.2.0

Create flag for homozygous alternatives

questionFurther information is requestedFurther information is requested

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

Status: Open.

Feature

#40 In sanger-tol/variantcalling;

· priyanka-surana opened on Jun 27, 2023