Hi AP,
Please keep all replies on list, this will allow the community to assist and
benefit from these correspondences.
SICER requires BED input. To go from BAM to BED:
1.) Convert BAM to SAM
2.) Convert SAM to Interval (Convert SAM to interval)
3.) Convert interval to BED(6+). This can be done
Hi AP,
SICER requires BED formatted input with at least 6 columns (for strand
information). You can convert your BAM files into SAM and then into interval
and BED format. Once you have your input in the BED (6+) format, you should be
able to use these tools. Please let us know if we can provid
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