📦 biosquid

A

• afetch(1)retrieve an alignment from an alignment database✨
• alistat(1)show statistics for a multiple alignment file✨

C

• compalign(1)compare two multiple alignments✨
• compstruct(1)calculate accuracy of RNA secondary structure predictions✨

R

• revcomp(1)reverse complement a nucleic acid sequence✨

S

• seqsplit(1)split seqs into chunks of defined size and overlap✨
• seqstat(1)show statistics and format for a sequence file✨
• sfetch(1)get a sequence from a flatfile database.✨
• shuffle(1)randomize the sequences in a sequence file✨
• sindex(1)index a sequence database for sfetch✨
• sreformat(1)convert sequence file to different format✨
• stranslate(1)translate a nucleic acid sequence to protein ORFs✨

W

• weight(1)calculates sequence weights for an alignment✨