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This program performs a given ANI method (ANIb or ANIm) on a set of input files or downloads a group of files by syncronizing to ftp://ftp.ncbi.nlm.nih.gov/genomes/Bacteria/ and by searching for the DOWNLOADTOKEN

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bfrgoncalves/ANI_Calculator

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Usage

ANI_calculator.py [-h] [-d DOWNLOADTOKEN] [-o OUTDIRNAME] [-i INDIRNAME] [-m METHOD]

Description

This program performs a given ANI method (ANIb or ANIm) on a set of input files or downloads a group of files by syncronizing to ftp://ftp.ncbi.nlm.nih.gov/genomes/Bacteria/ and by searching for the DOWNLOADTOKEN

ANIb method: Richter et al (2009) Proc Natl Acad Sci USA 106: 19126-19131 doi:10.1073/pnas.0906412106

ANIm method: Goris et al. (2007) Int J Syst Evol Micr 57: 81-91. doi:10.1099/ijs.0.64483-0

Optional arguments:

-h show this help message and exit

-d DOWNLOADTOKEN Token to search at ftp://ftp.ncbi.nlm.nih.gov/genomes/Bacteria/

-o OUTDIRNAME Output directory

-i INDIRNAME INDIRNAME Input directory name

-m METHOD Method to use (ANIm or ANIb)

Example of usage

ANIm analysis after downloading from NCBI files with Haemophilus_influenzae token: python ANI_calculator.py -d Haemophilus_influenzae -o output -t ANIm

ANIb analysis using files from InpuFiles folder: python ANI_calculator.py -i InputFiles -o output -t ANIb

#Dependencies

For ANI analysis

#Modules used

About

This program performs a given ANI method (ANIb or ANIm) on a set of input files or downloads a group of files by syncronizing to ftp://ftp.ncbi.nlm.nih.gov/genomes/Bacteria/ and by searching for the DOWNLOADTOKEN

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