Search results

Add option to disable partially-mapped reads filter on align command

backburnerLow-priority things that are still good to keep track ofLow-priority things that are still good to keep track of

enhancementNew feature or requestNew feature or request

good first issueGood for newcomersGood for newcomers

Status: Open.

#71 In fedarko/strainFlye;

· fedarko opened on Sep 24, 2024

Bizarre mamba installation error for a python 3.7.16 environment

bugSomething isn't workingSomething isn't working

installationEverybody's favorite part of bioinformaticsEverybody's favorite part of bioinformatics

Status: Open.

#70 In fedarko/strainFlye;

· fedarko opened on Sep 14, 2023

Reject contigs with names that would break bcftools

bugSomething isn't workingSomething isn't working

good first issueGood for newcomersGood for newcomers

Status: Open.

#65 In fedarko/strainFlye;

· fedarko opened on Jan 26, 2023

Use pyfaidx to access contigs in FASTA files

performancegotta go fastgotta go fast

Status: Open.

#64 In fedarko/strainFlye;

· fedarko opened on Nov 7, 2022

Output un-normalized coverages from "dynam covskew"

documentationImprovements or additions to documentationImprovements or additions to documentation

enhancementNew feature or requestNew feature or request

Status: Open.

#63 In fedarko/strainFlye;

· fedarko opened on Nov 3, 2022

More efficient contig subsetting

enhancementNew feature or requestNew feature or request

performancegotta go fastgotta go fast

Status: Open.

#62 In fedarko/strainFlye;

· fedarko opened on Oct 29, 2022

Fix CI warnings from GitHub Actions

administrativeLogistical, non-code-related thingsLogistical, non-code-related things

testingPlans for future tests, issues with current tests, etc.Plans for future tests, issues with current tests, etc.

Status: Open.

#61 In fedarko/strainFlye;

· fedarko opened on Oct 25, 2022

Consistent behavior on delaying creation of the output file(s) / output directory

backburnerLow-priority things that are still good to keep track ofLow-priority things that are still good to keep track of

Status: Open.

#60 In fedarko/strainFlye;

· fedarko opened on Oct 21, 2022

Close BAM files after every command / test that loads them

backburnerLow-priority things that are still good to keep track ofLow-priority things that are still good to keep track of

questionFurther information is requestedFurther information is requested

Status: Open.

#59 In fedarko/strainFlye;

· fedarko opened on Oct 19, 2022

Combining downstream commands

future ideaslonger-term enhancements that'd require a lot of extra time/attentionlonger-term enhancements that'd require a lot of extra time/attention

performancegotta go fastgotta go fast

Status: Open.

#58 In fedarko/strainFlye;

· fedarko opened on Oct 15, 2022

Ensure that contig names can be used within filenames

backburnerLow-priority things that are still good to keep track ofLow-priority things that are still good to keep track of

bugSomething isn't workingSomething isn't working

Status: Open.

#57 In fedarko/strainFlye;

· fedarko opened on Oct 13, 2022

Including (some) rare mutations from the decoy contig in the "fdr fix" BCF?

backburnerLow-priority things that are still good to keep track ofLow-priority things that are still good to keep track of

enhancementNew feature or requestNew feature or request

future ideaslonger-term enhancements that'd require a lot of extra time/attentionlonger-term enhancements that'd require a lot of extra time/attention

Status: Open.

#54 In fedarko/strainFlye;

· fedarko opened on Sep 30, 2022