Foivos Gypas

Hi Can biodalliance generate sashimi plots as igv does? If not is there any plan to support them? Thank you in advance Foivos

Hi When I run graphmap as following: `graphmap align -r {input.genome} --gtf {input.gtf} -d {input.reads} -o {output.sam}` the output sam contains duplicate entries in the header. Foivos

Addition of Dockerfile for version 0.11

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Addition of Dockerfile for version 0.11 Locally it works for me. The commands are called without the bin prefix as shown below: `julia whippet-index.jl --help` and not `julia bin/whippet-index.jl --help`...

Dockerfile for Whippet.jl

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Hi Do you have any Dockefile available for whippet? Thank you in advance Foivos

Update igv js version

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Closes #710 ## About - [X] I am closing an issue - [ ] This is a new component - [ ] I am adding a feature to an existing...

**Description** I am investigating different options for executing snakemake pipelines on AWS. It seems that the Amazon Genomics Cli supports AWS batch in the background. On the other hand, it...

Exons and introns coordinates

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Hi The **.stats** file, mentions a number of novel exons and a number of novel introns identified. Is there an easy way to get the coordinates of these regions? ```...

Investigate option to get a unique snakemake id for each workflow run

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**Is your feature request related to a problem? Please describe.** Let's say that we have a snakemake pipeline that has 30 steps, and let's assume that after 10 steps an...

**Is your feature request related to a problem? Please describe.** Panoptes is getting a request from snakemake via the create_workflow endpoint and generates a unique id. Then this id is...

**Describe the bug** - Pipeline shows as running when snakemake --until flag is used (even though the - Also the total number of jobs is not correct. It should not...