Add glimpse to multiqc

[LouisLeNezet]

Name of the tool

Glimpse_concordance

Tool homepage

https://odelaneau.github.io/GLIMPSE/

Tool description

Glimpse is a set of tools to phase and impute genetic variants.

Tool output

NA12878_D1_P1000GP.s.norel_Rchr21_16570000-16610000.rsquare.grp.txt
NA12878_D1_P1000GP.s.norel_Rchr21_16570000-16610000.error.spl.txt
NA12878_D1_P1000GP.s.norel_Rchr21_16570000-16610000.error.grp.txt
NA12878_D1_P1000GP.s.norel_Rchr21_16570000-16610000.rsquare.spl.txt
NA12878_D1_P1000GP.s.norel_Rchr21_16570000-16610000.error.cal.txt
NA12878_D1_P1000GP.s.norel_Rchr22_16570000-16610000_r2_sites.txt

Log filename pattern

*(.(error|rsquare).(spl|grp|cal))|(_r2_sites).txt

Data suitable for MultiQC plot(s)

The plot I'm mostly using is between the rsquare accuracy and the MAF of the variants see tutorial.
The genotype concordance is also really usefull, using the error.grp.txt file and it can be separated by all variants, only SNP or InDels.

Most interesting data for the General Stats table

The tables error.spl.txt and rsquare.spl.txt gives useful statistics for all individuals.

Before submitting

• I have included example data (zipped, not pasted) that can be used to write the module.