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Issues list

space between AMRs for merging
#2 opened Jul 17, 2022 by andrewdavidsmith updated Aug 25, 2022
roimethstat and order of chromosomes
#8 opened Jul 8, 2022 by andrewdavidsmith updated Oct 16, 2022
HMRs for replicates should be able to read tabular format enhancement New feature or request
#9 opened Jul 7, 2022 by andrewdavidsmith updated Oct 16, 2022
radmeth adjust outputs -1-1 in 7th field
#10 opened Jul 7, 2022 by guilhermesena1 updated Oct 16, 2022
Radmeth Merge DMR Criterion question Further information is requested
#13 opened Feb 12, 2020 by SDeans0 updated Oct 16, 2022
the entropy values of all CpG sites were negative
#15 opened Jan 26, 2022 by vanessayang0927 updated Oct 16, 2022
amrfinder eliminate_amrs_by_size enhancement New feature or request question Further information is requested
#16 opened Jul 30, 2014 by bdecato updated Oct 16, 2022
radmeth is too slow
#19 opened Jul 8, 2022 by guilhermesena1 updated Oct 16, 2022
Update PMD documentation to specify expected array input
#20 opened Jul 5, 2022 by guilhermesena1 updated Oct 16, 2022
roimethstat seems not be able to identify overlapping region
#21 opened Jan 24, 2022 by kyliuae updated Oct 16, 2022
Methcounts format for array data
#23 opened Jun 24, 2022 by andrewdavidsmith updated Oct 16, 2022
sensible output from levels command when run on symmetric CpG counts files question Further information is requested
#27 opened Nov 2, 2022 by andrewdavidsmith updated Nov 2, 2022
bigWig_to_methcounts
#28 opened Nov 4, 2022 by moqri updated Nov 4, 2022
SYM - collapsing counts for other methylation context enhancement New feature or request
#41 opened May 11, 2023 by olaraym updated May 11, 2023
amrfinder output
#71 opened Jul 18, 2023 by maggietsui updated Jul 20, 2023
Comparison with other tools
#115 opened Aug 22, 2023 by moqri updated Aug 22, 2023
hmr requires symmetric data, fails on lifted over .meth files
#43 opened Jun 17, 2023 by faulk-lab updated Aug 23, 2023
Keep non-CpG sites after sym command
#139 opened Sep 15, 2023 by natliang updated Sep 15, 2023
Targeted Methylation Sequencing
#114 opened Aug 22, 2023 by moqri updated Sep 20, 2023
mlml "error: chrom or pos mismatch in both files"
#135 opened Sep 12, 2023 by christianwake updated Oct 5, 2023
The hmr command fails when methylation levels are at extremes bug Something isn't working
#251 opened Nov 17, 2024 by andrewdavidsmith updated Nov 17, 2024
ProTip! Exclude everything labeled bug with -label:bug.