mlinscott

No intact LTR's passed through in combine stage

5

Hi Shujun, I noticed on my run through of EDTA 1.9.9 that none of the LTRs in the final combined library produced by EDTA had internal and LTR regions annotated...

LINES vs LTR content

2

Hi @oushujun, I have been running the EDTA pipeline on several mollusc genomes to compare repeat content between species. My primary focus has been on examining how LTR content differs...

Repetitive mollusc genome interpretation

3

I have had some troubles understanding my smudgeplot of a highly repetitive genome that has undergone LTR expansion recently. I counted 21-mers from 10x linked reads with the barcode information...

Use preexisting contig assembly instead of minia

2

Would lit be possible to use a pre-existing contig assembly for input to HASLR similar to what has been implemented for DBG2OLC (https://www.sciencedirect.com/science/article/pii/S0888754318305603)?

Hang up due to codeml and fix

1

Hello, I am using wgd to examine ancient genome duplication in my focal group. I ran wgd pre on two focal species to filter cds to those that would be...

Hi @clwgg, I am using nQuire to determine the ploidy of a highly repetitive metazoan genome (85% repeat content) using paired end data at 60x coverage. When I run nQuire...