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When doing tasks, each action requiring access to the pickled ensembl DB data (e.g looking up a new gene) adds values to the stack causing memory usage to skyrocket. Does not go away after deleting re…
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```java
at javax.servlet.http.HttpServlet.service(HttpServlet.java:790)
at org.eclipse.jetty.servlet.ServletHolder.handle(ServletHolder.java:769)
at org.eclipse.jetty.servle…
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Hi IGV team! If you're amenable to it, I'd like to implement a few infrastructural improvements for igv.js: continuous integration and ES6 export. These have helped [Ideogram.js](https://github.com/…
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Hi,
I have a bcbio installed with GRCH37. Now that I have a client who is intersted in mm10. I was trying to do python bcbio_nextgen.py upgrade --genomes mm10 and I ran into Import Error for single…
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Hi, I have downloaded the Java version 8 as well as the IGV browser for binary distribution. I tried to open the igv.bat file for Windows (I am running Windows 10) and I got the following message in m…
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Hello,
I have the following problem when running veqtl-mapper with my files:
Failed to extract any useful SNPs for ENSG00000238009.2. Run:
"tabix genotype.chr22.europe.veqtl_mapper.final.sort…
VekiJ updated
6 years ago
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Hello,
I want to run tadtool in a chromosome full, but come in my mind if there is a default cutoff in order to get TADs, indepently of several parameters like a resolution of my matrix, size of win…
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curators discuss organization of downloads page
documentation, slides etc, ftp, chado etc
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Hi,
I tried the analysis as in https://github.com/chapmanb/bcbio-nextgen/issues/2162 with also transcript_assembler activated.
I used this yaml file
```
# Template for RNA-seq using Illu…
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Here's a place to discuss JSON-LD readings. Maybe not the best place, but it's convenient.
I think that the 1.1 spec we pulled up on the call is a current draft & might change. The 1.0 version is…