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219 Open 603 Closed
219 Open 603 Closed
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Issues list

Option to skip first line
#1090 opened Apr 27, 2024 by bskubi
shuffle -incl: Fall out of -incl include.bed file
#1089 opened Apr 26, 2024 by chenludi
1
Undefined behavior in bedtools expand
#1088 opened Apr 25, 2024 by SoapGentoo
Command bedtools makewindows -w 200 -s 50 -g resources/hg19.autoX.chrom.sizes not working
#1086 opened Apr 19, 2024 by gurudatta-patil
The bedtools multiinter -header option outputs broken BED
#1085 opened Apr 5, 2024 by dbolser
2
getfasta -rna option does not work for plus strand line when setting -s option
#1084 opened Mar 27, 2024 by NaotoKubota
unable to install
#1082 opened Mar 13, 2024 by Heather1999
1
Stitching read pair R1 andf R2 sequences based on alignment from SAM/BAM
#1081 opened Feb 15, 2024 by mmokrejs
genomecov -d -pc -ibam showing no coverage for every position
#1080 opened Feb 15, 2024 by gcabebe
2
tutorial link broken
#1079 opened Jan 28, 2024 by notestaff
1
Example BED file(s) referenced throughout the docs are not tab delimited
#1078 opened Jan 24, 2024 by skchronicles
Bedtools install on Mac
#1077 opened Jan 19, 2024 by luigallucci
3
remote file support
#1076 opened Jan 12, 2024 by geertvandeweyer
Feature request: add -min option to genomecov
#1075 opened Jan 11, 2024 by ammaraziz
Length calculation in summary is incorrect if intervals in the input file overlap
#1073 opened Jan 3, 2024 by tdanhorn
the distance maximal by default of bedtools closest -D
#1071 opened Nov 10, 2023 by fafaris39
1
Does bedtools intersect still work when meets a line out of order?
#1069 opened Oct 28, 2023 by Cher-HAN
Difference of depth/mean coverage calculation among sambamba, bedtools, and mosdepth in high coverage panel data
#1065 opened Sep 13, 2023 by ipstone
bamtobed WARNING
#1063 opened Aug 25, 2023 by songxh1996
bedtools genomecov and non-primary alignments
#1061 opened Aug 21, 2023 by awgymer
2
Potential 32 bit overflow on parse of data with 2.2B lines
#1060 opened Aug 16, 2023 by wasade
Incorrect examples for intersect "-c/-C" (counting overlaps) with multiple query DBs
#1059 opened Aug 16, 2023 by cljacobs
bamToFastq v2.31.0 records repeated
#1058 opened Aug 10, 2023 by brianjohnhaas
3
gene overlap
#1055 opened Jun 20, 2023 by BeatrizFaustino
Memory issue while using coverage
#1054 opened May 23, 2023 by Sameerpython
1
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