arq5x bedtools2 issues - Githubissues

arq5x / bedtools2

bedtools - the swiss army knife for genome arithmetic

MIT License

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Bedtools Genomecov -pc Option: Name-Sorted BAM File Error in Version 2.31.0

#1108 yeeun3712 opened 1 week ago
0
Line limit of bedtools getfasta and other sub-commands?

#1107 YuanfengZhang opened 1 week ago
0
CLI seg faults

#1106 zeeev opened 3 weeks ago
0
Pre-compiled binary for bedtools 2.31.1

#1105 madelonst closed 1 month ago
1
Support native builds on Windows with MinGW/UCRT

#1104 theAeon opened 2 months ago
0
Strand specific behavior is broken

#1103 Thomas1664 opened 3 months ago
0
terminate called after throwing an instance of 'std::out_of_range'

#1102 hullv opened 3 months ago
0
Two Errors in Infographic for jaccard function

#1101 keksundso opened 3 months ago
0
bedtools not merging identical segments

#1100 mirahan closed 3 months ago
1
Latest conda version throws error for large chromStart values

#1099 SohaibRais opened 4 months ago
2
Error: Invalid record in file

#1098 r-poloni opened 4 months ago
0
Update ParseTools.h

#1097 emyr666 opened 4 months ago
0
need to include cstdint in ParseTools.h

#1096 emyr666 opened 5 months ago
0
adding a revcomp tool

#1095 kloetzl opened 5 months ago
0
fix memory leak in shiftBed

#1094 kloetzl opened 5 months ago
0
Correct link to Bedtools tutorial in the docs

#1093 dtdoering opened 5 months ago
0
Number can not keep consistant

#1092 hsymoon opened 5 months ago
1
Are there any means to speedup intersect?

#1091 lokapal opened 6 months ago
0
Option to skip first line

#1090 bskubi opened 7 months ago
0
shuffle -incl: Fall out of -incl include.bed file

#1089 chenludi opened 7 months ago
2
Undefined behavior in `bedtools expand`

#1088 SoapGentoo opened 7 months ago
0
allow python from environment and missing includes on musl

#1087 SoapGentoo opened 7 months ago
2
Command bedtools makewindows -w 200 -s 50 -g resources/hg19.autoX.chrom.sizes not working

#1086 gurudatta-patil opened 7 months ago
0
The `bedtools multiinter -header` option outputs broken BED

#1085 dbolser opened 7 months ago
2
getfasta -rna option does not work for plus strand line when setting -s option

#1084 NaotoKubota opened 8 months ago
1
typo fix: chromomsome

#1083 chrisamiller closed 7 months ago
2
unable to install

#1082 Heather1999 opened 8 months ago
1
Stitching read pair R1 andf R2 sequences based on alignment from SAM/BAM

#1081 mmokrejs opened 9 months ago
0
genomecov -d -pc -ibam showing no coverage for every position

#1080 gcabebe opened 9 months ago
2
tutorial link broken

#1079 notestaff opened 10 months ago
1
Example BED file(s) referenced throughout the docs are not tab delimited

#1078 skchronicles opened 10 months ago
0
Bedtools install on Mac

#1077 luigallucci opened 10 months ago
3
remote file support

#1076 geertvandeweyer opened 10 months ago
0
Feature request: add -min option to genomecov

#1075 ammaraziz opened 10 months ago
0
Fix minor `shuffleBed` option typo

#1074 ryancey1 opened 10 months ago
1
Length calculation in `summary` is incorrect if intervals in the input file overlap

#1073 tdanhorn opened 10 months ago
0
"intersect" tool test failure on i386

#1072 emollier closed 1 year ago
2
the distance maximal by default of bedtools closest -D

#1071 fafaris39 opened 1 year ago
1
describe bed coordinates as zero-based half-open intervals

#1070 kloetzl opened 1 year ago
1
Does bedtools intersect still work when meets a line out of order?

#1069 Cher-HAN opened 1 year ago
0
Does not compile in gcc 13.2.1

#1068 balwierz closed 1 year ago
3
Fix various GCC 13 warnings and errors

#1067 jmarshall closed 1 year ago
3
add cstdint imports to ParseTools

#1066 tomp closed 1 year ago
1
Difference of depth/mean coverage calculation among sambamba, bedtools, and mosdepth in high coverage panel data

#1065 ipstone opened 1 year ago
0
Minor typo fix in help

#1064 nikhil opened 1 year ago
0
bamtobed WARNING

#1063 songxh1996 opened 1 year ago
0
install bedtools on mac M2 chip

#1062 yijiesung closed 1 year ago
1
bedtools genomecov and non-primary alignments

#1061 awgymer opened 1 year ago
2
Potential 32 bit overflow on parse of data with 2.2B lines

#1060 wasade opened 1 year ago
0
Incorrect examples for intersect "-c/-C" (counting overlaps) with multiple query DBs

#1059 cljacobs opened 1 year ago
0