CI
cd5554d22f
Build pipeline: vsh-ci-build-template-k4qzr
Source commit: 173327cc56
Source message: Cellranger multi conversion: fix combined AB + CB probe experiments (#1062)
46 lines
1.8 KiB
YAML
46 lines
1.8 KiB
YAML
viash_version: 0.9.4
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source: src
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target: target
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# Note: this causes the docker images to be renamed
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name: openpipeline
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organization: openpipelines-bio
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summary: |
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Best-practice workflows for single-cell multi-omics analyses.
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description: |
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OpenPipelines are extensible single cell analysis pipelines for reproducible and large-scale single cell processing using [Viash](https://viash.io) and [Nextflow](https://www.nextflow.io/).
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In terms of workflows, the following has been made available, but keep in mind that
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individual tools and functionality can be executed as standalone components as well.
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* Demultiplexing: conversion of raw sequencing data to FASTQ objects.
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* Ingestion: Read mapping and generating a count matrix.
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* Single sample processing: cell filtering and doublet detection.
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* Multisample processing: Count transformation, normalization, QC metric calulations.
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* Integration: Clustering, integration and batch correction using single and multimodal methods.
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* Downstream analysis workflows
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license: MIT
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keywords: [single-cell, multimodal]
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links:
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repository: https://github.com/openpipelines-bio/openpipeline
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docker_registry: ghcr.io
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homepage: https://openpipelines.bio
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documentation: https://openpipelines.bio/fundamentals
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issue_tracker: https://github.com/openpipelines-bio/openpipeline/issues
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info:
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test_resources:
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- type: s3
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path: s3://openpipelines-data
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dest: resources_test
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nextflow_labels_ci:
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- path: src/workflows/utils/labels_ci.config
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description: Adds the correct memory and CPU labels when running on the Viash Hub CI.
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config_mods: |
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.resources += {path: '/src/workflows/utils/labels.config', dest: 'nextflow_labels.config'}
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.runners[.type == 'nextflow'].config.script := 'includeConfig("nextflow_labels.config")'
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