iMRM

Description:

iMRM is able to simultaneously identify m6A, m5C, m1A, ψ and A-to-I modifications in Homo sapiens, Mus musculus and Saccharomyces cerevisiae.

Installation:

• python3.6
• pandas==0.23.3
• joblib==0.13.2
• xgboost==0.90

pip install pandas==0.23.3 joblib==0.13.2 xgboost==0.90

pip install -r yours/requirement.txt

Optional arguments:

  -h, --help            show this help message and exit
  --addresses ADDRESSES
                        Liukeweiaway@hotmail.com
  -i INPUTFILE, --inputFile INPUTFILE
                        -i input.txt (The input file is a complete Fasta
                        format sequence.)
  -o OUTPUTFILE, --outputFile OUTPUTFILE
                        -o output.html (Results are saved under results
                        folder.)
  -s SPECIES, --species SPECIES
                        -m Human/Mouse/Yeast (Choose one from three species to
                        use.)
  -m MODIFICATION, --modification MODIFICATION
                        -m m6A/m5C/A-toI/pseudouridine/m1A/all (It should be
                        noted that A-to-I modification is limited by the
                        amount of data and can only be predicted in human.)
  -t THRESHOLD, --threshold THRESHOLD
                        -m low/normal/high (We offer 3 options based on the
                        difference in specificity, which are low, normal and
                        high.)

Example:

python iMRM.py -i sequence.txt -o ccc.html -s Human -m all -t normal

Version number：V0.0.1
Updated date：2020-02-26
Web server: http://www.bioml.cn/XG_iRNA/home
Email: Liukeweiaway@hotmai.com