Katelyn

I am also in need a faster BLASTP. I tried usearch, which worked well in prelim testing, but then I ran into the 4gb db size. I have tried Diamond,...

Awesome, I have been using diamond for years, and I just recently realized there was an _stitle_ option (I had been using blastdbcmd to get the _stitle_, and merging into...

Should default behavior be to only show the _stitle_ and not require a seperate flag/arguement? If a user wants both the _qseqid_ (a second time) and _stitle_ they would use:...

I ended up coding a fix for both the stitle/sseqid bug and the stitle/salltitles I tried to keep the code as little changed as possible, and also in the same...

Ah, maybe you were right in suggesting a separate flag for trimming the seqids from the defline. While testing my code with test sequences I realized that blast does not...

That is a cool trick. I always seem to find new ways to use paste. But as a fix I added a fork, we will see if it gets accepted....

Exactly. Ideally one of the properties of a fasta/q files is that all ids are unique. However often times people unknowingly create improper fasta/q files. One of the main ways...

Hm, that is strange. In the current version I reset everything between contigs (which I probably shouldn't do since contigs in the same file should probably be treated as the...

Yeah, the problem with making it default is that most people won't read the fulls docs, and so will run MAG files through as the same genome, which will skew...

Ah, that error is caused by the weights not being dialed in yet. I will see if I can get the weights sorted out, and/or track down the cause of...