Select most abundant peptides

Select most abundant peptides filters a protein table according to the peptides abundance. The x most abundant peptides / protein are selected to produce a peptide table. Then the mean of the x most abundant peptides / protein is calculated to build a protein table.

Manual :

1- install Julia free programming language and install package :

DataFrames : Pkg.add("DataFrames")

2- unzip the software

3- edit config file in the config directory and enter the names of :

# number of top peptides to average

peptidesNB=3

# sample names. Enter a string common to all samples.

# For example "sample", for sample_1, sample_2...

sampleTAG=MS2Quantity

# protein column name

protColName=PG_ProteinNames

4- copy your n tables in csv (TAB delimitated by default) files in the “data” directory.

- first line of the table : column names with at least : protein names and sample names

- next lines : values

5- execute the software by the command : julia software_name

6- results tables are in the results directory.

Caution : missing values not allowed in peptides signals - require julia >= 0.6