Home

Setting up

• Installation and dependencies

CDSKIT commands

• accession2fasta: Retrieving fasta sequences from a list of GenBank accessions

• aggregate: Extracting the longest sequences combined with a sequence name regex

• backtrim: Back-translating a trimmed protein alignment

• hammer: Removing less-occupied codon columns from a gappy alignment

• intersection: Dropping non-overlapping sequence labels between two sequences files or between a sequence file and a gff file

• label: Modifying sequence labels

• mask: Masking ambiguous and/or stop codons

• pad: Making nucleotide sequences in-frame by head and tail paddings

• parsegb: Converting the GenBank format

• printseq: Print a subset of sequences with a regex

• rmseq: Removing a subset of sequences by using a sequence name regex and by detecting problematic sequence characters.

• stats: Printing sequence statistics.