enveomics

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The coordinates returned (`pos.from` and `pos.to`) don't seem to correspond to either relative (contig) position nor absolute (genome) position.

lmrodriguezr

The manifest allows blat, so I'm labeling this as a bug.

lmrodriguezr

full blast+ output for ani.rb

1

Hello @lmrodriguezr , The --out option in `ani.rb` describes the alignments used for the two-way ANI. I'd like to inspect the regions used, using different window sizes and step sizes...

geboro

BLAST won't process fragments with >40% ambiguous sequences, so those fragments should be discarded before the search.

lmrodriguezr

I can't re-open my issue about multithreading. So I re post my message here Unfortunately i can't read MiGA documentation. I see only the titles on the doc. I was...

sbridel

ogs.annotate.rb problem

2

ogs.annotate.rb does not annotate my OG matrix, but I do not know what the problem is. I am attaching my input files (OGs_matrix.txt, annotation.txt) and output file (OGs_matrix_annotated.txt). I am...

blancaverag

Using a syntax similar (or identical) to :requires, suggesting optional requirements like the `rest-client` gem for `ani.rb` and `aai.rb`.

lmrodriguezr

Hey Luis, I am on here just to ask when the semantics can be deposited on here as I didn't find any dropbox links on http://enveomics.blogspot.com/ . Many thanks!

yoyohashao

Hello Miguel, Is there a reason that aai.rb support gz files while ani.rb does not? This is very useful in many cases, especially when we have large number of genomes...

jianshu93