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Abhinav Sharma abhi18av @biosharp-dotnet New Delhi, India https://www.linkedin.com/in/abhi18av

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initial draft ports for WDL tasks

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port more processes from WDL

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completed the draft ports of all processes from WDL pipeline

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PR opened abhi18av/gatk4-germline-snps-indels

Feat/port modules

This PR is a stand-in for https://github.com/seqeralabs/gatk4-germline-snps-indels/pull/3

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got haplotype_caller.nf working with mtb genomes

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got haplotype_caller.nf working with mtb genomes

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download the scatter intervals list and tweak haplotype_caller.nf

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port all modules to use a params map

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haplotype_caller is working now

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should be working; but isn't

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checkpoint: used buffer to reshape the emitted value

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haplotype_caller is working now

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PR closed seqeralabs/gatk4-germline-snps-indels

Feat/port haplotypecaller workflow

This is a stand-in for the official PR

https://github.com/seqeralabs/gatk4-germline-snps-indels/pull/4

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PR opened seqeralabs/gatk4-germline-snps-indels

Feat/port haplotypecaller workflow

This is a stand-in for the official PR

https://github.com/seqeralabs/gatk4-germline-snps-indels/pull/4

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Workflow for germline short variant discovery using GATK4

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iterate at a module level

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reaching the completion of draft for the first workflow

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Focusing on completing the haplotype_caller workflow first

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PR opened seqeralabs/gatk4-germline-snps-indels

add the nextflow pipeline for gatk4 germline calling workflow

The WDL reference for this pipeline is here https://github.com/gatk-workflows/gatk4-germline-snps-indels

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add stubs for the workflow and modules

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add wdl tasks for the haplotypecaller

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add stubs for all nextflow modules for the pipeline

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Merge pull request #1 from seqeralabs/feat/gatk4-pipeline add folder structure and module stubs

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PR merged seqeralabs/gatk4-germline-snps-indels

add folder structure and module stubs

The WDL reference for this pipeilne is here https://github.com/gatk-workflows/gatk4-germline-snps-indels

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trigger build

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create barnchseqeralabs/gatk4-germline-snps-indels

branch : develop

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created repositorynextflow-hub/download_sra

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issue openednextflow-hub/tb-profiler

Rename the project to tb_profiler

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issue openedpulumi/pulumi-azure-nextgen

Add support for F# template

Hi Team,

Thanks for the wonderful product!

I was wondering whether the azure-nextgen is stable enough to add support for the F# template.

As of today, I think the only C# is available.

$ pulumi new azure-nextgen-fsharp
error: template 'azure-nextgen-fsharp' not found

Did you mean this?
        azure-nextgen-csharp

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add the cambridge hackathon certificate

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PR closed nextflow-io/nextflow

feat: add the docs for CLI interface

This PR adds the Command Line Interface section in the docs.

  • CLI top-level options

image

  • CLI top-level commands

image

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abhi18av

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pull request commentnextflow-io/nextflow

feat: add the docs for CLI interface

I'm closing this PR since there's another PR which builds upon this work.

https://github.com/nextflow-io/nextflow/pull/1759

abhi18av

comment created time in 10 days

pull request commentnextflow-io/nextflow

Abhi18av docs/cli

This PR builds upon the PR here https://github.com/nextflow-io/nextflow/pull/1751

evanfloden

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startedjbangdev/jbang

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delete branch nextflow-hub/tb-profiler

delete branch : develop

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delete branch nextflow-hub/tb-profiler

delete branch : errorStrategy

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