Description

Post-processing script of the MaltExtract component of the HOPS package

Input

Name (Type)
Description
Pattern

maltextract_results (directory)

MaltExtract output directory

results/

taxon_list (file)

List of target taxa to evaluate used in MaltExtract

*.txt

filter (string)

The filter mode used in MaltExtract

def_anc|default|scan|ancient|crawl

Output

Name (Type)
Description
Pattern

versions (file)

File containing software versions

versions.yml

json (file)

Candidate summary heatmap in MultiQC compatible JSON format

heatmap_overview_Wevid.json

summary_pdf (file)

Candidate summary heatmap in PDF format

heatmap_overview_Wevid.pdf

tsv (file)

Candidate summary heatmap in TSV format

heatmap_overview_Wevid.tsv

candidate_pdfs (directory)

Directory of per sample output PDFs organised by reference

pdf_candidate_profiles/
author
Github user jfy133
get in touch
Ask a question on Slack Open an issue on GitHub

Tools

amps
GPL >=3

Post-processing script of the MaltExtract tool for ancient metagenomics

github.com/rhuebler/HOPS github.com/keyfm/amps 10.1186/s13059-019-1903-0