-
I am trying to prepare the dog genome for fusion gene searching, but PATH errors occur `prep_genome_lib.pl` in any version of STAR-Fusion (from v1.6.0 to v1.10.0). I am getting stuck in dfam and pfam …
-
EDIT:
I think a better way to phrase this:
When a gene_name/symbol from NCBI in the gene info does not belong to the gene bed file (ensembl version outdated so synonyms changed/areas remapped/di…
-
In our mouse cDNA data, we hypothesise that mt-Atp6 and mt-Atp8 are encoded together on the mouse mitochondrial genome as a single polycistronic unit, which is demonstrated by observing co-expression …
-
Dear @brianjohnhaas
First of all, Thank you so much for the great tool!
Currently, I keep seeing this error message below during the prep_genome_lib.pl
> ** Error, not able to find file: pfam_…
-
**Describe the bug**
A user has submitted the variant description `NM_001987.5:c.?_33::NM_021947.3:c.-4_?` which fails to validate and which triggers an ERROR email to the sysadmins.
Transforming …
-
Hi @brianjohnhaas,
We analyzed the same sample using STAR-Fusion 1.8.1 with the genome resource lib GRCh38_gencode_v32_CTAT_lib_Dec062019.plug-n-play and STAR-Fusion 1.11.1 with GRCh38_gencode_v37…
-
I'm using the latest mfannot via docker image.
I'm annotating a fungal mt genome with [genetic code 4](https://www.ncbi.nlm.nih.gov/Taxonomy/Utils/wprintgc.cgi#SG4), and some of the ORFs were probl…
-
nup189-deltaC,SPAC1486.05:allele-4,C-terminal deleted,{6ad90d4a01aee5f2}
nup189-deltaN,SPAC1486.05:allele-3,N-terminal deleted,{6ad90d4a01aee5f2}
nup98-tail(uncleavable),SPAC1486.05:allele-6,Nup98 p…
-
Dear Brian.
We ran STAR-Fusion on a tumor sample.
The tumor sample was already known to contain a TMPRSS-ERG fusion, the fusion breakpoints could precisely be determined on the DNA level.
We a…
-
Hi,
If I have a series of interchromosomal translocation events stored in .vcf file, can I construct a graph that represent this kind of variants using vg ? If vg cannot solve this problem, can o…