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Issues list

bamcoverage bedgraph sorting for SEACR
#1312 opened May 7, 2024 by Rahel14350
3 of 4 tasks
1
Documentation clarification needed for --normalizeUsing option in bamCoverage
#1311 opened May 6, 2024 by kalavattam
4 tasks done
RNA-seq bam to bw
#1310 opened May 1, 2024 by Tang-pro
ISSUES for scaling calculation
#1309 opened Apr 26, 2024 by jiangshan529
Using just the read ends in bamCoverage
#1307 opened Apr 10, 2024 by gokceneraslan
What is the samtools flag used in bamPEFragment?
#1306 opened Apr 9, 2024 by gerko0914
the conflict about the pheatmap and multibigwigsummary results
#1296 opened Mar 11, 2024 by liuyu988
1
plotFingerprint bigwig support enhancement
#1290 opened Feb 12, 2024 by annajbott
1
Why enrichment of TSS and TES region are similar when using scale-region
#1274 opened Nov 5, 2023 by lucifer9288
Question about different information included in the input bed file would generate totally different Metagene Plot
#1273 opened Oct 23, 2023 by lillianj97
Display the name of genes
#1272 opened Oct 21, 2023 by nilanjana1996
4 tasks
issue with multibigwigsummary
#1270 opened Oct 15, 2023 by liuyu988
bug in alignmentSieve --ATACshift
#1268 opened Oct 9, 2023 by njwehi
--skipNonCoveredRegions/--skipNAs not working for bigwigCompare in sparse data
#1267 opened Oct 5, 2023 by jantusan
Problem with inconsistent lines output from K-means clustering
#1253 opened Sep 7, 2023 by magnusdottir
problem with methylation BigWig
#1250 opened Aug 31, 2023 by gyanmishra
bamCoverage --extendReads, defaultFragmentLength can be 0 causing program to fail
#1249 opened Aug 30, 2023 by Alexwestbrook
--filterRNAstrand usage for alignmentSieve is missleading ReadTheDocs
#1248 opened Aug 30, 2023 by VeredKunik
inconsistent peak around TSS between 'reference-point' and 'scale-regions' with plotHeatmap
#1231 opened Jun 27, 2023 by Ritetsu
1
About calculating RPM (reads per million) using bamCoverage.
#1228 opened Jun 19, 2023 by GleeenSIBS
1
Average plot using all groups
#1217 opened May 29, 2023 by raquelgarza
1
Normalization missing in multiBamSummary+plotPCA
#1215 opened May 22, 2023 by 13rajendra
computeMatrix with --unscaled5prime optional argument
#1212 opened May 2, 2023 by connertraugot
plotHeatmap label rotation issue
#1209 opened Apr 17, 2023 by lnblum
getScorePerBigWigBin.py error with output from bigWigMerge
#1208 opened Apr 4, 2023 by perinom
1
ProTip! What’s not been updated in a month: updated:<2024-04-07.