6 weeks ago Martin C. Frith Add PAM10 substitution score matrix default tip
6 weeks ago Martin C. Frith Omit non-alphabet letters for DB seq lengths
6 weeks ago Martin C. Frith Refactor
6 weeks ago Martin C. Frith Allow score matrix with letter frequencies
6 weeks ago Martin C. Frith Refactor
6 weeks ago Martin C. Frith Enable stored E-value params for any genetic code
6 weeks ago Martin C. Frith Add NCBI genetic codes
6 weeks ago Martin C. Frith Improve E-values for multiple short DB sequences
3 months ago Martin C. Frith dotplot: change satellite-repeat color to purple
4 months ago Martin C. Frith Change last-split -m default to 1
4 months ago Martin C. Frith Fix rare last-split spliced alignment crash
5 months ago Martin C. Frith dotplot: change the undocumented input format
7 months ago Martin C. Frith Add last-dotplot --join option
7 months ago Martin C. Frith Make lastal startup even faster
7 months ago Martin C. Frith Make lastal startup faster
7 months ago Martin C. Frith Simplify some probability calculations a bit
7 months ago Martin C. Frith Refactor
7 months ago Martin C. Frith Add piecewise linear gap costs (unfinished)
7 months ago Martin C. Frith Add lastal/last-train -X option for ambiguous N/X
8 months ago Martin C. Frith Refactor
8 months ago Martin C. Frith Refactor
8 months ago Martin C. Frith Refactor
8 months ago Martin C. Frith Change the effect of setting lastal option -t
8 months ago Martin C. Frith Fix fastq-aware last-train (lastal -j7)
8 months ago Martin C. Frith Refactor
8 months ago Martin C. Frith Make lastal code more robust for non-DNA
8 months ago Martin C. Frith Refactor (prepare new score-matrix analysis)
8 months ago Martin C. Frith Refactor
8 months ago Martin C. Frith Refactor
11 months ago Martin C. Frith Make tantan repeat-finding faster
11 months ago Martin C. Frith Update the documents a bit
11 months ago Martin C. Frith Add last-dotplot --maxseqs option
11 months ago Martin C. Frith Make last-split -n keep E-values
12 months ago Martin C. Frith Add fastq-ignore option
12 months ago Martin C. Frith Refactor
12 months ago Martin C. Frith Fix gz reading for Python3
14 months ago Martin C. Frith Python3-ify last-map-probs
14 months ago Martin C. Frith Make pair-probs almost work for ref rev strands
14 months ago Martin C. Frith postmask: fix asymmetric matrix & ref rev strand
14 months ago Martin C. Frith Improve the documentation
14 months ago Martin C. Frith fastq-interleave: add /1 & /2 to identical names
14 months ago Martin C. Frith last-train: train substitutions from fastq!
15 months ago Martin C. Frith Fix lastal -j7 quality-aware expected counts
15 months ago Martin C. Frith Read fastq faster
15 months ago Martin C. Frith lastal -j7: quality-aware expected counts
15 months ago Martin C. Frith Refactor
15 months ago Martin C. Frith Add last-split --format option
15 months ago Martin C. Frith postmask: fix bug for spliced alignments
16 months ago Martin C. Frith Python3-ify maf-join
16 months ago Martin C. Frith Fix crash for bad score matrix
17 months ago Martin C. Frith Make last-dotplot really work with Python3
18 months ago Martin C. Frith Python3-ify: dotplot, train, convert, swap
18 months ago Martin C. Frith Purely cosmetic change to last-train output
18 months ago Martin C. Frith Fix postmask header bug introduced in v938
18 months ago Martin C. Frith postmask: fix bug for unusual alignment headers
18 months ago Martin C. Frith Make last-train find LAST programs more robustly
18 months ago Martin C. Frith Modernize the Python code
18 months ago Martin C. Frith Change lastal -x & -z options
18 months ago Martin C. Frith Make last-train use last-postmask
18 months ago Martin C. Frith postmask: bugfix for strand-asymmetric scores