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36 Open 349 Closed
36 Open 349 Closed
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Issues list

In-frame indels shouldn't necessarily be "genes_inactivated"
#385 opened Oct 11, 2024 by dannagifford
2
How to judge some unassigned evidence in my experiment
#383 opened Oct 7, 2024 by Gia1120
Allow hard-clipping and BAM input with --aligned-sam feature-request
#378 opened Aug 19, 2024 by jeffreybarrick
Identify linked mutations from mapped reads feature-request
#357 opened Sep 8, 2023 by spleonard1
2
How to merge multi-sample result into one file to get a summarized summary file for all samples for Insertion sequences?
#297 opened Jan 5, 2022 by safinaARK
compare tables should always display sample names used to generate them enhancement Priority-Low
#283 opened Aug 19, 2021 by danieldeatherage
1
Add a tutorial for how to predict genomic insertions of a cassette. documentation
#278 opened Aug 13, 2021 by jeffreybarrick
1
Rename output.gd file with the name of the fastq file or part of it
#275 opened Jul 23, 2021 by loukesio
3
Make JC evidence in HTML tables more readable
#273 opened Jul 22, 2021 by jeffreybarrick
Empty allele in VCF output
#272 opened Jul 22, 2021 by jeffreybarrick
Remove requirement for 'which' command
#263 opened May 28, 2021 by jeffreybarrick
merge info from different samples for downstream processing feature-request
#238 opened Apr 16, 2020 by wmoebius
2
Stale reference and reads feature-request
#234 opened Mar 13, 2020 by jeffreybarrick
Replace SAM file intermediates with BAM files coding-project
#222 opened Nov 5, 2019 by jeffreybarrick
@jeffreybarrick
Compare across samples to improve predictions of low-frequency variants coding-project
#221 opened Oct 11, 2019 by jeffreybarrick
3 tasks
@jeffreybarrick @dgauraang
2
Summarizing data quality/coverage across many runs coding-project
#219 opened Oct 2, 2019 by jeffreybarrick
@ginnymortensen
3
Treatment similarity/specificity statistics coding-project
#217 opened Sep 28, 2019 by jeffreybarrick
5 tasks
@danieldeatherage
1
Phylogenetic tree generation coding-project
#216 opened Sep 27, 2019 by jeffreybarrick
2
Utility for de novo assembly of unmapped reads coding-project
#215 opened Sep 27, 2019 by jeffreybarrick
4 tasks
Predict structural variation from mate-pair mapping coding-project
#214 opened Sep 27, 2019 by jeffreybarrick
5 tasks
@jeffreybarrick
1
Update/improve Circos visualization coding-project
#213 opened Sep 21, 2019 by jeffreybarrick
3 tasks
3
Detect discontinuity (soft-clipping) evidence coding-project
#212 opened Sep 21, 2019 by jeffreybarrick
2 tasks
Add interactivity to HTML output coding-project
#211 opened Sep 21, 2019 by jeffreybarrick
3 tasks
Parallelize breseq execution coding-project
#210 opened Sep 21, 2019 by jeffreybarrick
1 of 3 tasks
@jeffreybarrick
3
Predict copy number variation (amplifications) coding-project enhancement
#208 opened Sep 20, 2019 by jeffreybarrick
13
ProTip! Exclude everything labeled bug with -label:bug.