panbar panbar - 1 year ago 90
Bash Question

Concatenate two columns and paste the merged column

I have a tab delimited file as follows-

loci1 loci2 name1 name2
utr3p utr3p TERF1 ISCA2
utr3p intron LPP PAAF1
utr3p intron RPL37A RCC1
coding intron BAG2 RP11
intron intron KIF1B SNORA21
intron downstream GUSBP4 CTD
intron intron CLTC VMP1
utr3p utr3p PCYT1A ZHX3

I would like to concatenate two columns name1 and name2 (joined by "__").The merged column should be pasted as a new column "merged_names" in a new file. How can I do it using awk.

Expected output -

loci1 loci2 name1 name2 merged_names
utr3p utr3p TERF1 ISCA2 TERF1__ISCA2
utr3p intron LPP PAAF1 LPP__PAAF1
utr3p intron RPL37A RCC1 RPL37A__RCC1
coding intron BAG2 RP11 BAG2__RP11
intron intron KIF1B SNORA21 KIF1B__SNORA21
intron downstream GUSBP4 CTD GUSBP4__CTD
intron intron CLTC VMP1 CLTC__VMP1
utr3p utr3p PCYT1A ZHX3 PCYT1A__ZHX3

sat sat
Answer Source

You can use this awk:

awk 'BEGIN{OFS=FS="\t"} NR==1{$(NF+1)="merged_names"} NR!=1{$(NF+1)=$(NF-1) "__" $NF}1' file

More shortened awk:

awk 'BEGIN{OFS=FS="\t"} {$(NF+1)=(NR==1)? "merged_names" : $(NF-1)"__"$NF}1' file
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