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I'm developing the 3.0 version of the monarch ui/website, and I've run into a limitation. @putmantime
Here is an example response from the `/search/entity/{term}` endpoint, searching "ssh":
```…
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I would like to download all files here: https://resources.aertslab.org/cistarget/
Is there a fast way to download all the contents with the appropriate structures without having to use zsync for i…
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I managed to successfully build and index with ( ftp://ftp.flybase.net/genomes/Drosophila_melanogaster/dmel_r6.04_FB2015_01/fasta/dmel-all-chromosome-r6.04.fasta.gz ) and version 0.1.5-beta (the one f…
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I am wanting to extract the longest transcript for each gene from a gtf file (or gff3 file). I have installed cgat gtf2gtf and have tried using various parameters to do this using Drosophila melanog…
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**What is this request referring to?**
miRNA variant
**What is the name you would like SO to give the term?**
miRNA_variant
**What is the definition that you would like for this term?**
A var…
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### What would you like to see added to the NWBInspector?
From discussion the other day, need to formalize a Best Practice for using the `age` of `Subject` as a free-form text field to account for so…
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The list of model organisms that researchers are using for studies of development is the following:
- Human - Homo sapiens
- Mouse - Mus Musculus
- Zebrafish - Danio rerio
- Chick embryo - Gallu…
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`reformat_transcripts --annotation_files Drosophila_melanogaster.BDGP6.28.100.sorted.gff3 --annotation_format GFF3 --sorted --output_format GTF2 Drosophila_melanogaster.BDGP6.28.100.sorted.gtf2
`
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Hi Ivan,
we tested Graphmap to align RNA-seq reads to the reference genome. For benchmark purposes, we tried to align the [reference transcripts](ftp://ftp.ensembl.org/pub/release-89/gtf/drosophil…
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**Describe the issue**
When running RepeatModeler, I am consistently getting the same issue at the clustering step of the LTR Pipeline. I am getting essentially the same error message as in #241, h…