ogotoh

Thank you for keeping spaln involved as a part of BioConda. I have not changed the relevant files (blksrc.h, blksrc.cc) since the previous version (Ver2.4.12), while you seemed to have...

This parameter is internally used to help potentially best choice among a few heuristic algorithms, and it does not ensure that the resultant exon lengths are restricted to values larger...

Giardia genome appears to be intron-poor, so that only a small number of learning samples have been available. I think –T gairlamb (or equivalently –T Archamoe) works, but unfortunately it...

The problem with -Q4 option has been fixed in spaln2.3.3. Osamu

Could this problem occur because the scaffold is too short, i.e. shorter than the protein it matches to? Thank you for your report. Yes, that can happen when you don’t...

Dear Vicencio, Thanks, I am looking forward to your continued report. If possible, could you kindly send me a few examples for which spaln produced negative coordinates? Osamu,

Dear Vicencio, Many thanks. I got your examples that I just wanted. I will see what is happening to improve spaln's performance and also to satisfy my curiosity. Do you...

I have gotten the possible reason why spaln reports negative or out-of-range coordinates. The hint comes from your example .O0 files. In example1_gff3.O0, for example, the scaffold name of each...

Dear Vicencio, Please wait one or two days before you install a new version. Using a WGS genome and Swiss-Prot aa sequences, I found a few cases in which negative...

Dear Vicencio, Thank you very much for your report. Upon uploading, I missed to update several files. I’ve just uploaded revised version of Spaln2.4.2. Osamu,