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bedtools maskfasta with incomplete chromosomes

Status: Open.

#1118 In arq5x/bedtools2;

· r-poloni opened on Feb 18, 2025

Feature request: only check first column of genome file for -g option of bedtools intersect

Status: Open.

#1117 In arq5x/bedtools2;

· bentyeh opened on Feb 8, 2025

Feature request: remove need to supply genome file to bedtools intersect -sorted when the inputs are already chromosome-grouped and coordinate-sorted.

Status: Open.

#1116 In arq5x/bedtools2;

· bentyeh opened on Feb 8, 2025

unionbedg -header not working

Status: Open.

#1114 In arq5x/bedtools2;

· GregorD96 opened on Jan 29, 2025

Bedtools runs infinitely with large memory usage under sorted option when there's unmapped reads

Status: Open.

#1113 In arq5x/bedtools2;

· kheber opened on Jan 22, 2025

bedtools intersect with -g option: chromosomes without regions cause intersections being missed

Status: Open.

#1111 In arq5x/bedtools2;

· ChrissiKalk97 opened on Jan 9, 2025

static.binary missing for 2.31.1

Status: Open.

#1110 In arq5x/bedtools2;

· bartcharbon opened on Dec 16, 2024

Inconsistent naming convention warning

Status: Open.

#1109 In arq5x/bedtools2;

· fa8sanger opened on Nov 28, 2024

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

Status: Open.

#1108 In arq5x/bedtools2;

· yeeun3712 opened on Nov 14, 2024

Line limit of bedtools getfasta and other sub-commands?

Status: Open.

#1107 In arq5x/bedtools2;

· YuanfengZhang opened on Nov 11, 2024

CLI seg faults

Status: Open.

#1106 In arq5x/bedtools2;

· zeeev opened on Oct 29, 2024

Strand specific behavior is broken

Status: Open.

#1103 In arq5x/bedtools2;

· Thomas1664 opened on Aug 21, 2024