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  • B
    That would depend on the length, as Diamond does not work well for very short sequences. The input file would have to be FASTA.
  • C
    CHUAI replied to the thread Different results on Diamond.
    Thanks!!! I found these two sequences when I ran Diamond version 0.9.29 in sensitive mode!
  • B
    I have not seen this issue myself. Could you make a small toy example to demonstrate this? Also note that in general, a target sequence...
  • B
    I do find the H2.bin.75.faGL000044 hit when using the latest version of Diamond in sensitive mode. The other query is not included in...
  • C
    CHUAI replied to the thread Different results on Diamond.
    [oldest version Diamond result] H2.bin.75.faGL000721 YP_005796289.1 31.6 405 244 4 4 1140 4 401 5.9e-59 217.2 H2.bin.75.faGL000044...
  • C
    Hi, I have a question. I aligned sequences (attached files) using Diamond version 0.9.24, I found no sequences aligned. then I compared...
  • R
    r0r replied to the thread Reporting of alignments.
    I have done quite some tests, and using the combination -k 0 and --taxon-k 6 I only get at most 5 hits per species. There seems to be a...
  • B
    Yes, it should work like that.
  • R
    r0r replied to the thread Reporting of alignments.
    Hi, I'm trying this option that looks very interesting. I have a database made of 5 species, and I would like to get the 6 best hits...
  • R
    r0r replied to the thread output CIGAR format.
    It works perfectly with this new commit, thanks. I have checked manually a few cigar strings and it is all good. The output files are...
  • B
    Benjamin Buchfink replied to the thread output CIGAR format.
    Please try again with the latest commit.
  • R
    r0r replied to the thread output CIGAR format.
    many thanks! However I get an error message when trying to compile this commit (not sure the problem comes from the commit or the way...
  • B
    Benjamin Buchfink replied to the thread output CIGAR format.
    No problem, the feature has been added to the latest github commit. Use the output field cigar.
  • R
    r0r posted the thread output CIGAR format in Feature requests.
    Dear Benjamin, would it be possible to have a cigar field in the tab-delimited output ? By 'cigar' I mean for instance: 16M2D3M1I23M...
  • B
    Benjamin Buchfink replied to the thread variant calling.
    Sorry I'm not aware of such a software, but there might as well be one.
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