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14 Open 155 Closed
14 Open 155 Closed
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Issues list

Add Slurm option for account to be charged for resources used enhancement New feature or request
#289 opened May 20, 2024 by jaamarks
@jaamarks
call rate filter
#288 opened May 16, 2024 by 1teaspoon
dynamically adjust minimum MAF for HWE calculation and add option to set HWE p value threshold Priority1
#287 opened May 9, 2024 by shukwong
@kliao12
v1.4.0 testing on 90k sample dataset: rule sample_concordance_king exceeds time limit
#282 opened May 1, 2024 by 1teaspoon
@jaamarks
7
case_control_gwas option error: Missing input files for rule gwas Priority1
#280 opened Apr 29, 2024 by 1teaspoon
@jaamarks
1
Unexpected Replicate count/flag when one of the pair is contaminated Priority1
#269 opened Mar 7, 2024 by 1teaspoon
@carynwillis
Create docker and singularity images for pipeline
#250 opened Aug 7, 2023 by dorks81
@jsanjak @n8sean
Option to run the QC pipeline with GTC files only (without the idat files)
#247 opened Jul 19, 2023 by liuj1818
Unknown sample count missing in Table 1 bug Something isn't working
#238 opened Aug 23, 2022 by 1teaspoon
@jaamarks
2
create documentation on running the pipeline using a slurm cluster on GCP documentation Improvements or additions to documentation
#232 opened Jun 15, 2022 by shukwong
Create installation documentation for Slurm cluster documentation Improvements or additions to documentation
#230 opened Jun 10, 2022 by shukwong
gtc to ped, 0|G is actually A|G Priority1
#222 opened Mar 2, 2022 by 1teaspoon
@carynwillis
internal QC vs project QC in sample sheet
#219 opened Feb 18, 2022 by 1teaspoon
1
required output file .nosex bug Something isn't working Priority2
#214 opened Dec 6, 2021 by 1teaspoon
2
ProTip! What’s not been updated in a month: updated:<2024-04-26.