SA2SU

SALMON (https://github.com/COMBINE-lab/salmon) to SUPPA2 (https://github.com/comprna/SUPPA) table converter.

How to use the script

This script runs on terminal with the following parameters:

python3 SA2SU.py -i <input-file.sf> <input-file.sf> <input-file.sf> -o <output-file.tsv>

• -i | --input-file: .sf(tabular) files from SALMON output separated by a space
• -o | --output-file: a .tsv format file from the input tables merged by 'Name' and the 'TPM' column (each column labeled as sample_N)

Output (SUPPA2 input)

A transcript expression file with multiple samples:

sample1 sample2 sample3 sample4
transcript1 <expression>  <expression>  <expression>  <expression>
transcript2 <expression>  <expression>  <expression>  <expression>
transcript3 <expression>  <expression>  <expression>  <expression>

AUTHOR/SUPPORT

Lucas Servi, [email protected]