bedextract - manual page for bedextract 2.4.41+dfsg

       bedextract

              citation: http://bioinformatics.oxfordjournals.org/content/28/14/1919.abstract

              https://doi.org/10.1093/bioinformatics/bts277

       version:
              2.4.41 (typical)

       authors:
              Shane Neph & Alex Reynolds

              Every input file must be sorted per sort-bed.

              USAGE:

       0) --help or --version
              Print requested info and exit successfully

       1) --list-chr <input.bed>
              Print all unique chromosome names found in <input.bed>

       2) <chromosome> <input.bed>
              Retrieve all rows for chr8 with:  bedextract chr8 <input.bed>

       3) <query.bed> <target>
              Grab elements from the <query.bed> that overlap elements in <target>. Same as

       `bedops -e 1 <query.bed> <target>`, except that this option fails silently
              if  <query.bed> contains fully-nested BED elements.  If no fully-nested element exists, bedextract
              can vastly improve upon the performance of bedops.  <target> may be a BED or Starch file (with  or
              without fully-nested elements).  Using '-' for <target> indicates input (in BED format) comes from
              stdin.

       bedextract - manual page for bedextract 2.4.41+dfsg

       The  full  documentation  for  bedextract  is maintained as a Texinfo manual.  If the info and bedextract
       programs are properly installed at your site, the command

              infobedextract

       should give you access to the complete manual.

bedextract 2.4.41+dfsg                            December 2024                                    BEDEXTRACT(1)