📦 seer

B

• blast_top_hits(1)reduces a blast or blat output file to the top hit for each query sequence only✨
• blastn_to_phandango(1)create a plot file for visualisation in phandango✨

C

• combineKmers(1)basic algorithm to combine kmer counts across samples This program belongs to seer(1) (Sequence Element (kmer) Enrichment Analysis).✨

F

• filter_seer(1)post filtering of significant kmers✨

H

• hits_to_fastq(1)create a fastq for mapping from significant kmers✨

K

• kmds(1)control for population structure✨

M

• map_back(1)context of significant kmers✨
• mapping_to_phandango(1)create a plot file for visualisation in phandango✨
• mash2matrix(1)create all pairwise distances between samples✨

R

• R_mds(1)project distance matrix into lower number of dimensions✨
• reformat_output(1)reformats output for easier reading as tsv✨

S

• seer(1)sequence element enrichment analysis✨