Annika Jochheim
Annika Jochheim
This is a small bug in the release, which only occurs with sequences smaller than alphabet size, it is already fixed in the current github version. The relevant commit is...
Hi, can you report the exact command you used and your MMseqs2 version. Would it also be possible to share your sequences?
Hi Ayush, your `--cov-mode 3` parameter might also be an issue. If your sequences vary in the range of 2500-3000 bp we can expect that the sequence length of many...
okay, from this point I can only guess without having the sequences. Linclust peforms an ungapped alignment to pre-cluster in the first step and uses gapped alignments later. Is it...
"gt linspace_align global lin gap protein filelist" includes multiple test combinations. By using valgrind the test did not finish on time, so I wanted to split the test cases. Even...
I didn't know that, I will try it.
is it possible to provide us your input reads? My first guess would be some problem with the quality strings within the fastq files. Which Plass version are you using?
you mentioned .fq files, but the read files you provide are in fasta format. Plass utilize the FLASH code for merging paired end reads in the first step, however FLASH...
I already introduced a parameter for that in the nucleassemble command: --min-contig-len We could simply adopt it, or? I also ran a small example where I could reproduce the error...
Hi, I fixed some smaller bugs in plass also related to memory access in the last months. Could you try to use the latest version from github? @martin-steinegger Can you...