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How to Annotate Gene names in *.bedmethyl files generated from ModKit?

Status: Open.

#1135 In arq5x/bedtools2;

· vaishnavpvarma opened on Dec 17, 2025

Unexpected intersections produced by bedtools intersect (v2.31.1)

Status: Open.

#1133 In arq5x/bedtools2;

· Bbbbqsh opened on Nov 18, 2025

bedtools bamtofastq duplicate reads

Status: Open.

#1132 In arq5x/bedtools2;

· Amend-1634 opened on Nov 17, 2025

pairToPair not working in bedtools > 2.27

Status: Open.

#1131 In arq5x/bedtools2;

· bepoli opened on Oct 23, 2025

The Ultimate Adviser to Choosing a luxury Chesterfield super king bed

Status: Open.

#1129 In arq5x/bedtools2;

· bestbeds opened on Sep 8, 2025

Unexpected behavior from -noOverlapping option of bedtools shuffle

Status: Open.

#1126 In arq5x/bedtools2;

· cwhelan opened on Jun 17, 2025

unexpected behavior of pairToBed -ispan

Status: Open.

#1125 In arq5x/bedtools2;

· cooketho opened on Jun 4, 2025

bam to bed behavior when supplementary alignments are present

Status: Open.

#1124 In arq5x/bedtools2;

· LinearParadox opened on May 9, 2025

bedtools flank -s not work

Status: Open.

#1123 In arq5x/bedtools2;

· leon945945 opened on Apr 18, 2025

bedtools merge: groupby

Status: Open.

#1122 In arq5x/bedtools2;

· Gri72 opened on Mar 29, 2025

null-pointer-dereference

Status: Open.

#1121 In arq5x/bedtools2;

· QiuYitai opened on Mar 25, 2025

bedtools maskfasta with incomplete chromosomes

Status: Open.

#1118 In arq5x/bedtools2;

· r-poloni opened on Feb 18, 2025