bedGraph helpers

bedGraph helpers are used for converting interval-style signal tracks to nucleotide-level tables and for smoothing RPM density tracks.

Input bedGraph format

Both commands expect a tab-delimited bedGraph-like file without a header:

chrom    start    end    value

Coordinates follow the standard 0-based, half-open interval style used by bedGraph:

chr1    100    103    2.5

represents positions 100-101, 101-102, and 102-103 with value 2.5.

bg2meta

Function

Convert bedGraph intervals to single-nucleotide rows for downstream plotting or meta-position analysis.

Parameters

Parameter	Meaning
-i	Input bedGraph file.
-o	Output TXT/TSV file.
-v, --version	Print script version.

Example

bg2meta \
  -i sample.plus.bedgraph \
  -o sample.plus.meta.txt

Example input:

chr1    100    103    2.5

Example output:

chr1    101    2.5
chr1    102    2.5
chr1    103    2.5