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**Is your feature request related to a problem? Please describe.**
I am trying to use the API to retrieve exon genomic start/end coordinates (for a specific genome assembly) for MANE transcripts.
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We could use some way to index reads so that we can go from a k-mer to all reads that contain it.
Here are a few references courtesy of a Twitter conversation with @rchikhi:
[Parallel and memory-eff…
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Dear CMash team,
I am wondering the CMash is a metric, meaning, is CMash (A, B) the same with CMash (B, A), or CMash (A, B) + CMash (B, C) >= CMash (A, C), that is the last 2 rules of metric space:…
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Hello
I am a beginner in bioinformatic and the use of command line tools.
I am trying to build the image docker using the Dockerfile. The process failed at that step :
RUN cd $clinsv_path && \…
avp65 updated
1 month ago
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Currently the SraRunTable.txt is coming from the "Metadata" tab in the NCBI SRA Run Table web GUI. We'll need to find a way to automatically download this table.
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First Trial
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### Data Owner Name
DataWorker
### Data Owner Country/Region
Hong Kong
### Data Owner Industry
Life Science / Healthcare
### Website
https://registry.opendata.aws/allen-mouse-brai…
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EDIT: The samtools-1.9 issues are resolved. 1.10 still has some outstanding problems.
This may be the same problem as #1244.
#### Are you using the latest version of [samtools](https://github.co…
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I have shared a script for copywriter that works.
It takes ~2 hours for one sample on a node.
I tested on my samples with ~5kb deletion covering one exon of _IFNGR2_.
I have run both a 20kb and 10k…
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Hi BASALT Team,
Thanks for creating such a great tool! I have been trying out this program on 9 different samples and have been running BASALT individually for each set of assemblies on my HPC clus…