-
Dear Mr Hirotaka,
We read your paper on this protocol and I was wondering if you had a de-localised form of this repository that could be transferred and used on a different in-house system? We are i…
-
The current implementation outputs VAR and REF read counts for non-synonymous variants only. I would be great, as a user to have the option to output read-support counts for all variants. I've used Va…
-
Hello @maickrau,
I'm interested in deconvolving the main rDNA variants for the cell line we are working with. I've used ONT duplex data to build the DBG and the resulting graph looks fine. I obtain…
-
Maybe the MAFFT output doesn't give the proper format for your tool to run, but I am not getting correct looking results. Can you look at what MAFFT outputs here:
http://mafft.cbrc.jp/alignment/server…
-
Hello @jonassibbesen,
Just reaching out for a bit of assistance
Out of 33,462 candidate SVs called with Manta, I have successfully genotyped 26,606 SVs. To compare the relative frequency of SV ty…
-
Currently there is no unpacker for base64 encoded data streams
-
Hi,
I have a question on vg msga. There are many parameters to set with little documentation on what is best to use. I understand that this is a difficult topic, but I hope that someone with more vg …
-
I have vcf (attached). At locus 3619 it shows 'AT' in REF field and 'TT,AA' in ALT field. To my understanding Vg should show three paths i.e. AT, TT & AA. However, it shows four paths instead i.e. AT,…
-
Hi! Thank you so much for providing this implementation and documentations. I have been looking for the pytorch implementation of enformer for a while.
When I run the provided code `test_pretraine…
-
Hello,
I'm using this software for my own species(no pre-built ref genome).
./mirnovo.pl -i S1.fasta.gz -g NA -t universal_plants -o S1_small
The file S1.fasta.gz is around 200Mb, seems it's runni…