svr_fids_to_locations < FIDs > with.locs

Clusters from protein-encoding genes

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Example:

    svr_all_features 3702.1 fid | svr_fids_to_locations
    svr_all_features 3702.1 fid | svr_fids_to_locations -b

would produce a 3-column table. The first column would contain FID IDs and the second the FID locations. The file would be sorted on the locations. The second version would coallapse multi-region locations into lust the boundaries. ------

The standard input should be a tab-separated table (i.e., each line is a tab-separated set of fields). Normally, the last field in each line would contain the FID for which clusters are being requested. If some other column contains the FIDs, use

    -c N

where N is the column (from 1) that contains the FID in each case.

This is a pipe command. The input is taken from the standard input, and the output is to the standard output.

Command-Line Options

-c Column

This is used only if the column containing FIDs is not the last.

-b [return just boundaries]

Output Format

The standard output is a tab-delimited file. It consists of the input file with an extra column added (the locations of fids)