After allele frequency estimation step, TELR will repeatmask reference genome using custom TE library. The output GFF will then be converted to BED format, which will be used in the liftover process. Previously the BED file was not sorted, which might cause some issues downstream. I have now added a step to sort this BED file before using it.
After allele frequency estimation step, TELR will repeatmask reference genome using custom TE library. The output GFF will then be converted to BED format, which will be used in the liftover process. Previously the BED file was not sorted, which might cause some issues downstream. I have now added a step to sort this BED file before using it.