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extract cram to bam to fastq from extract_reads

Status: Open.

#16 In mctp/hapster;

· mcieslik-mctp opened on May 27, 2020

Mask genes in primary contigs?

questionFurther information is requestedFurther information is requested

Status: Open.

#15 In mctp/hapster;

· MBMumphrey opened on May 27, 2020

Don't include official alt contigs in reference?

questionFurther information is requestedFurther information is requested

Status: Open.

#14 In mctp/hapster;

· MBMumphrey opened on May 27, 2020

GFFs don't account for germline imputed indels

bugSomething isn't workingSomething isn't working

Status: Open.

#13 In mctp/hapster;

· MBMumphrey opened on May 25, 2020

Add tune_parameters to help file

documentationImprovements or additions to documentationImprovements or additions to documentation

Status: Open.

#12 In mctp/hapster;

· MBMumphrey opened on May 22, 2020

Add option to choose number of cores for a command

enhancementNew feature or requestNew feature or request

Status: Open.

#9 In mctp/hapster;

· MBMumphrey opened on Dec 16, 2019

Version control for tools package

enhancementNew feature or requestNew feature or request

Status: Open.

#6 In mctp/hapster;

· MBMumphrey opened on Dec 16, 2019

Unhelpful snakemake errors when running extract_reads with no commands

Status: Open.

#2 In mctp/hapster;

· MBMumphrey opened on Dec 12, 2019