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  • Merge GeneIDs in table

    Hi,
    I am not able to find a solution here. Maybe someone can chime in. The task seems simple: A table with GeneIDs in one colunm and GOs in another. the problem is that I have 1 Gene - 1 GO per row. I would like to merge those from the same ID and place all GOs in the second column. Something like:

    Code:
    g00010 GO:1903046
    g00010 GO:1990391
    g00020 GO:0000003
    g00020 GO:0000075
    g00020 GO:0000076​
    and output:

    Code:
    g00010 GO:1903046,GO:1990391
    g00020 GO:0000003,GO:0000075,GO:0000076

    So it can be input into run_GOseq.pl

    TIA

  • #2
    After a few prompts whith ChatGPT it looks like a find a solution:

    Code:
    awk '{ arr[$1] = arr[$1] ? arr[$1] "," $2 : $2 } END { for (id in arr) { print id, arr[id] } }' input.txt​

    Comment

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