post-v1.0.0 proposals and issues (header post)

[ ] bam annotation? https://github.com/open2c/pairtools/issues/67
[x] ~~report mapq in the stats: https://github.com/open2c/pairtools/issues/80 (or extend to any specified additional fields?)~~ This was actually implemented in the 1.0.0 release...
[x] support Python 3.10: not possible due to conda problem with glibc
[ ] single-cell walkthrough: too detailed
[ ] more extended description of pair types standards, maybe a walkthrough (see question: https://github.com/open2c/pairtools/issues/112, also https://github.com/open2c/pairtools/issues/68, https://github.com/open2c/pairtools/issues/104)
[ ] Add tests for compression-decompression: https://github.com/open2c/pairtools/issues/51
[ ] Add tests for example_pipeline @golobor : https://github.com/open2c/pairtools/issues/35
[x] Line split fix for non-pysam parsers: https://github.com/open2c/pairtools/issues/145

[ ] duplicate the data processing history (currently stored in @PG fields) in #command fields of the .pairs header:, declined for now: https://github.com/open2c/pairtools/issues/70
[ ] suggestion to set the default temporary folder to ./ instead of $TMPDIR, declined for now https://github.com/open2c/pairtools/issues/84
[ ] sort is parallel, but someone reported that it is not for their case, no reproducible example: https://github.com/open2c/pairtools/issues/72
[ ] pairtools subsampling is present, not clear what might be the modifications: https://github.com/open2c/pairtools/issues/66
[ ] unified way of changing the separator, not clear why it's needed and what are the use cases: https://github.com/open2c/pairtools/issues/50

open2c / pairtools