RNAmediator.GenerateBigWig.create_bw_entries

RNAmediator.GenerateBigWig.create_bw_entries(fname, goi, gstrand, gs, ge, cutoff, border, ulim, padding, chromstr)

Create entries for BigWig files

Parameters:

• fname (str) – Filename to read from

• goi (str) – Gene of interest

• gstrand (str) – strand of goi

• gs (int) – gene start coordinates

• ge (int) – gene end coordinates

• cutoff (float) – Cutoff for the definition of pairedness, if set to < 1 it will select only constraint regions with mean raw (unconstrained) probability of being unpaired <= cutoff for further processing(default: 1.0)

• border (float) – Cutoff for the minimum change between unconstrained and constraint structure, regions below this cutoff will not be further evaluated.

• ulim (int) – Stretch of nucleotides used during plfold run (-u option)

• padding (int) – Padding around constraint that will be excluded from report, default is 1, so directly overlapping effects will be ignored

Returns:

_description_

Return type:

_type_

Raises:

Exception – _description_