File Format Converter
perl script to convert between a number of genomic interval file formats: bed, gff, gff3, gtf, tagalign. Allows customized output formatting string to convert any known input format to any output format. Also change chromosome fields as appropriate for different downstream applications. Open the file in a text editor for instructions.Downsample
perl script to randomly reduce the number of reads in a file. Open the file in a text editor for instructions.Overlap
perl script to calculate the intersection of two bed files. The resulting file preserves the score of each of the original intervals. Open the file in a text editor for instructions.