index_vals
Martin Asser Hansen edited this page Oct 2, 2015
·
5 revisions
index_vals ads an index (a forth running number) for the different values in the stream for a given key denoted
with the -k switch. The values needn't be sorted.
... | index_vals [options]
[-? | --help] # Print full usage description.
[-k <string> | --key=<string>] # Key with values to index.
[-I <file!> | --stream_in=<file!>] # Read input from stream file - Default=STDIN
[-O <file> | --stream_out=<file>] # Write output to stream file - Default=STDOUT
[-v | --verbose] # Verbose output.
Consider the following table in the file test.tab:
#MID BEG END SCORE
MID51 6099 6408 24
MID51 38849 40451 62
MID51 22258 23567 24
MID51 50054 52161 34
MID52 4267 4442 105
MID52 4400 4658 25
MID52 169970 173847 23
MID51 8273 8981 16
MID51 43015 44202 66
MID54 8109 8393 69
We can add an index to the MID column using index_vals like this:
read_tab -i test.tab | index_vals -k MID | write_tab -cxk MID,MID_INDEX,BEG,END,SCORE
#MID MID_INDEX BEG END SCORE
MID51 0 6099 6408 24
MID51 1 38849 40451 62
MID51 2 22258 23567 24
MID51 3 50054 52161 34
MID52 0 4267 4442 105
MID52 1 4400 4658 25
MID52 2 169970 173847 23
MID51 4 8273 8981 16
MID51 5 43015 44202 66
MID54 0 8109 8393 69
Martin Asser Hansen - Copyright (C) - All rights reserved.
April 2013
GNU General Public License version 2
http://www.gnu.org/copyleft/gpl.html
index_vals is part of the Biopieces framework.