Indraniel

how to perform variant calling with a whole genome graph (NA24385 example)

6

I'm trying to loosely follow the NA24385 work as described in the [biorxiv paper][0], and [working with a whole genome variation graph][1] wiki page and I'm now having trouble figuring...

CRAM support?

1

This is a neat clojure library for bioinformatics. Do you plan on adding [CRAM][0] file support? [0]: https://samtools.github.io/hts-specs/CRAMv3.pdf

spark connect and databricks connect support?

18

Will geni support Spark 3.5's remote connections to clusters via [spark connect][0] and [databricks connect][1] ? [0]: https://spark.apache.org/docs/latest/spark-connect-overview.html [1]: https://docs.databricks.com/en/dev-tools/databricks-connect/scala/index.html

Supports installing Go 1.3, and correctly downloads older versions of Go (1.2.2 and older). Possibly future versions of Go can be downloaded correctly too.

Ability to use dsub's python api directly in a python script

3

We were interested in using `dsub` inside [Google Cloud Functions](https://cloud.google.com/functions). It appears that Google Cloud Functions doesn't allow for making subprocess calls. It is possible to call `dsub` through its...

When I attempt to use `mondo` with CCL, via `roswell`, I get the following error: ``` $ ros use ccl-bin/1.12.1 $ mondo > Error: The value (:INTERNAL CFFI-CALLBACKS::|#::TEMP48368| CL-READLINE:BIND-KEYSEQ) is...