arq5x/bedtools2

Incorrect examples for intersect "-c/-C" (counting overlaps) with multiple query DBs

cljacobs opened this issue · 0 comments

Very minor issue.

The current online documentation for bedtools intersect appears to be incorrectly formatted for the counting options: -c and -C when demonstrated with multiple database files. The second database file, C.bed is never specified in the example command(s). Also, when demonstrating the use of -filenames/-names, the query input file (-a A.bed) is included as one of the database files; arguably, in the case of -names, the output is correct for the input line (after adding C.bed as a database), but it's misleading b.c. matching the names "a" and "b" to the files "B.bed" and "C.bed" is just confusing.