Maciek Sykulski

Port to Google Sheets

1

Would it be possible to port this add-on to Google Sheets so that code inside sheet cells/columns can be automatically syntax highlighted?

Very high methylation frequencies from PromethION wgs run

24

Hi, yesterday we've run `nanopolish call-methylation` according to [Live methylation calling](https://simpsonlab.github.io/2020/03/03/nanopolish-v0.12.0/) instruction. ```shell NCALLS=12 time parallel -u 'nanopolish call-methylation -v \ --progress \ -g "'"$REF"'" \ -t "'"$THREADS"'" \ --watch-write-bam...

Reported CIGAR string is for a suboptimal alignment in some cases.

1

Hi, The example code here uses an aligner with the following scoring scheme: Match:2, Mismatch:-1, all_gaps_penalties=1 ``` import ssw_aligner query='CAGACAATCAGCATGTTTCCGGCAGCGCCGGTAG' target='TTCCACCATTTGTCCGGACCGGGC' def get_striped_ed_aligner(query_seq,match_score=2): return ssw_aligner.StripedSmithWaterman( query_seq, gap_open_penalty=1, gap_extend_penalty=1, match_score=match_score, mismatch_score=-1,...

Reported CIGAR string is for a suboptimal alignment in some cases.

10

Hi, ``` import skbio skbio.__version__ '0.5.5' ``` The example code here uses an aligner with the following scoring scheme: Match:2, Mismatch:-1, all_gaps_penalties=1 ``` from skbio import alignment query='CAGACAATCAGCATGTTTCCGGCAGCGCCGGTAG' target='TTCCACCATTTGTCCGGACCGGGC' def...