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
Download files
Download the file for your platform. If you're not sure which to choose, learn more about installing packages.
Source Distribution
Built Distribution
Filter files by name, interpreter, ABI, and platform.
If you're not sure about the file name format, learn more about wheel file names.
Copy a direct link to the current filters
File details
Details for the file ekl_mgenomics-1.1.tar.gz.
File metadata
- Download URL: ekl_mgenomics-1.1.tar.gz
- Upload date:
- Size: 4.8 kB
- Tags: Source
- Uploaded using Trusted Publishing? No
- Uploaded via: twine/6.2.0 CPython/3.13.9
File hashes
| Algorithm | Hash digest | |
|---|---|---|
| SHA256 |
b6f19679ade73a5120aebc66174e1f54b1c6aea1b2015acc745b57cdffa233d8
|
|
| MD5 |
ea3ebb0389efd22027637ee0d45cd9d9
|
|
| BLAKE2b-256 |
c8aa3f948710374c57d68169a6c8ffe2502f42595ea4f0d6aeccd81f4a2a4c74
|
File details
Details for the file ekl_mgenomics-1.1-py3-none-any.whl.
File metadata
- Download URL: ekl_mgenomics-1.1-py3-none-any.whl
- Upload date:
- Size: 6.0 kB
- Tags: Python 3
- Uploaded using Trusted Publishing? No
- Uploaded via: twine/6.2.0 CPython/3.13.9
File hashes
| Algorithm | Hash digest | |
|---|---|---|
| SHA256 |
483334b10e5eb11d46a37091d8403c46f4fbef0250f77574c94e1df9303326b9
|
|
| MD5 |
746796d4daa429097771c1d34098060b
|
|
| BLAKE2b-256 |
7a9bb2d7c3dca16f4215fce7b4a4dfb472e9796061e770b57c84692348d49d87
|
