cre.lupus.filter.sh

#!/bin/bash

bname=`basename $1 .csv`

head -n1 $1 > $bname.lupus.csv
cat $1 | egrep "\"(ACP5|ADAR|C1QA|C1QB|C1QC|C1R|C1S|C2|C3|C4A|C4B|CYBB|DNASE1|DNASE1L3|FASLG|IFIH1|KRAS|MAN2B1|NEIL3|PEPD|PRKCD|PSMA3|PSMB4|PSMB8|PTEN|PTPN11|RAG2|RNASEH2A|RNASEH2B|RNASEH2C|SAMHD1|SHOC2|SLC7A7|TMEM173|TNFRSF6B|TREX1)\"" >> $bname.lupus.csv
#cat $1 | awk -F ',' '$6 ~/^(AP3B1|BLOC1S6|CD27|GATA2|ITK|LYST|NLRC4|PRF1|RAB27A|SH2D1A|SLC7A7|STX11|STXBP2|UNC13D|XIAP)$/{print}' > $bname.lupus.csv