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50 Open 113 Closed
50 Open 113 Closed
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Issues list

check that input is 2.5x read coverage of samples enhancement New feature or request
#205 opened Aug 23, 2024 by kelly-sovacool
should we advise users to concat multiple replicates of input?
#204 opened Aug 23, 2024 by kelly-sovacool
refactor: use CCBR/Tools for shared utility functions
#203 opened Aug 14, 2024 by kelly-sovacool
@kelly-sovacool
Replace sicer with epic2 enhancement New feature or request
#199 opened Jul 8, 2024 by kopardev
@kelly-sovacool
add featurecounts for consensus peaks enhancement New feature or request
#194 opened Feb 29, 2024 by slsevilla
R scripts are producing Fontconfig errors related to cache directory bug Something isn't working
#193 opened Feb 26, 2024 by slsevilla
1
consider using 'quick' partition on biowulf for small & fast jobs
#187 opened Feb 23, 2024 by kelly-sovacool
Reduce footprint of pipeline bug Something isn't working
#184 opened Feb 23, 2024 by slsevilla
1 task
1
jaccard index is running significantly more comparisons than needs to be performed bug Something isn't working HighPriority
#182 opened Feb 23, 2024 by slsevilla
can we get champagne run to work without the need for init? cli Related to the Command Line Interface
#178 opened Feb 19, 2024 by kelly-sovacool
3
create workflows/champagne.nf
#177 opened Feb 19, 2024 by kelly-sovacool
clarify input vs control documentation Improvements or additions to documentation
#175 opened Feb 19, 2024 by kelly-sovacool 2024-08
overhaul documentation website documentation Improvements or additions to documentation
#174 opened Jan 19, 2024 by kelly-sovacool 2024-07
@kelly-sovacool
1
stub run local & on github actions hangs indefinitely
#171 opened Jan 18, 2024 by kelly-sovacool
@kelly-sovacool
1
Error in chipseeker with test_human dataset bug Something isn't working
#169 opened Jan 16, 2024 by kelly-sovacool
@kelly-sovacool
1
Download fastqs from SRA and populate sample sheet enhancement New feature or request
#166 opened Jan 11, 2024 by kelly-sovacool
@kelly-sovacool
List of test datasets enhancement New feature or request
#165 opened Jan 10, 2024 by kopardev 2024-07
@kopardev @kelly-sovacool
4
Consider using Sierra Platinum for consensus peak calling on biological replicates
#164 opened Jan 3, 2024 by kelly-sovacool
1
shared singularity cache doesn't work for non-CCBR users bug Something isn't working
#161 opened Dec 8, 2023 by kelly-sovacool
@kelly-sovacool
5
q-values after consensus peak normalization are all 1 bug Something isn't working
#160 opened Dec 5, 2023 by kelly-sovacool
2
Consider consensus peak overlap procedure
#159 opened Nov 30, 2023 by kelly-sovacool
1
Add ROSE enhancement New feature or request
#149 opened Nov 15, 2023 by kopardev
@kelly-sovacool
Spike-in Normalization support enhancement New feature or request
#148 opened Nov 15, 2023 by kopardev
@kelly-sovacool
2
docs: create flowchart with LucidChart documentation Improvements or additions to documentation
#131 opened Nov 3, 2023 by kelly-sovacool 2024-08
@kelly-sovacool
Different number of peaks when compared with ChIPseq ccbrpipeliner legacy version bug Something isn't working
#127 opened Nov 1, 2023 by kopardev
@kopardev
6
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