samtools-stats(1) on Linux
The text d48512c34e4b, as Debian 12 (Bookworm) shipped it.
produces comprehensive statistics from alignment file
Flags it lists
-
--GC-depth -
--cov-threshold -
--coverage -
--filtering-flag -
--help -
--id -
--insert-size -
--most-inserts -
--read-length -
--ref-seq -
--remove-dups -
--remove-overlaps -
--required-flag -
--sparse -
--split -
--split-prefix -
--target-regions -
--threads -
--trim-quality -
-@ -
-F -
-I -
-P -
-S -
-X -
-c -
-d -
-f -
-g -
-h -
-i -
-l -
-m -
-p -
-q -
-r -
-t -
-x