A tool for MAG taxonomy assignment using Blastn
Project description
Ekl_mgenomics
A tool for MAG (Metagenome Assembled Genome) taxonomy analysis using Blastn.
Installation
pip install Ekl-mgenomics
Usage
ekl_tax "path_to_your_fasta_file" "path_to_where_you-Want_output_folder" "path_to_local_db"
If running remote blast -----> omit writting the three parameter.
If IndexError---> Go to that chunks blast file and delte the malfunctioned file and again do [ekl_tax yourgenome.fasta] Sometimes blast itself makes error in sending the file in correct formate (rarely).
Requirements
- BLAST+ must be installed on your system
- Internet connection for remote BLAST and Entrez queries
What it does
- Splits your fasta file into 200kb chunks per contig
- BLASTs each chunk against NCBI nt database
- Assigns taxonomy to each contig
- Writes OrganismTaxonomy.tsv with full results
- Stores the results and files in a folder. 6.Can run both local db and remote db
Author
Eklavya Kumar
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