MGKit: Metagenomic framework
release/0.3.3
Introduction
Installation
Metagenomic Pipeline
Scripts Details
blast2gff - Convert BLAST output to GFF
filter-gff - Filter GFF annotations
add-gff-info - Add informations to GFF annotations
get-gff-info - Extract informations to GFF annotations
hmmer2gff - Convert HMMER output to GFF
snp_parser - SNPs analysis
download-taxonomy.sh Download Taxonomy
taxon-utils - Taxonomy Utilities
fasta-utils - Fasta Utilities
fastq-utils - Fastq Utilities
json2gff - Convert JSON to GFF
Overview
Options
download-profiles - Download Custom Profiles
sampling-utils - Resampling Utilities
download-data - Download Taxonomy from NCBI
Download Taxa IDs from Uniprot
Download Taxa IDs from NCBI
Download Required Data (Deprecated)
translate_seq - Translate Nucleotides to Aminoacids (Deprecated)
Example Notebooks
MGKit GFF Specifications
Library Reference
Changes
MGKit: Metagenomic framework
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json2gff - Convert JSON to GFF
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