Hello
Thanks for making this great tool
Some TE insertions that are called have zero length in the bed file but not in the fasta, e.g.
seqkit fx2tab -l -n barcode10_HP1-refT1/barcode10_HP1.telr.te.fasta | grep "rnd-1_family-337"
contig_1873_2633_2633#rnd-1_family-337 2493
grep "rnd-1_family-337" barcode10_HP1-refT1/barcode10_HP1.telr.bed
contig_1873 2633 2633 rnd-1_family-337 . -
I am wondering what these indicate? This is what I would expect a deletion to look like but my understanding is that TELR only calls insertions?
Thanks in advance
Lily
Hello
Thanks for making this great tool
Some TE insertions that are called have zero length in the bed file but not in the fasta, e.g.
I am wondering what these indicate? This is what I would expect a deletion to look like but my understanding is that TELR only calls insertions?
Thanks in advance
Lily