LFX Platform

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LFX Insights

Bioinformatics Pipelines

Pipelines for processing high‐throughput sequencing data – including RNA‑seq analysis pipelines that integrate tools for alignment, quantification, and quality control.

13 projects

2,655 contributors

$2.7M

Snakemake

This is the development home of the workflow management system Snakemake. For general information, see

Contributors

2,001

Organizations

449

Software value

$1.7M

nf-core/rnaseq

A bioinformatics pipeline for RNA sequencing analysis that performs quality control, alignment, quantification and extensive quality control on RNA sequencing data

Contributors

654

Organizations

105

Software value

$1.1M

Dockstore

An app store for scientific workflows, tools, notebooks, and services

This project hasn't been onboarded to LFX Insights.

MAG Pipeline

Assembly and binning of metagenomes

This project hasn't been onboarded to LFX Insights.

MethylSeq Project

Methylation (Bisulfite-Sequencing) analysis pipeline using Bismark or bwa-meth + MethylDackel

This project hasn't been onboarded to LFX Insights.

Nextflow

A DSL for data-driven computational pipelines

This project hasn't been onboarded to LFX Insights.

Nextstrain for SARS-CoV-2

Nextstrain build for SARS-CoV-2

This project hasn't been onboarded to LFX Insights.

Sarek

Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing

This project hasn't been onboarded to LFX Insights.

Single-cell RNA-seq Pipeline

Single-cell RNA-Seq pipeline for barcode-based protocols such as 10x, DropSeq or SmartSeq, offering a variety of aligners and empty-droplet detection

This project hasn't been onboarded to LFX Insights.

ampliseq

Amplicon sequencing analysis workflow using DADA2 and QIIME2

This project hasn't been onboarded to LFX Insights.

nf-core config chooser

Config files used to define parameters specific to compute environments at different Institutions

This project hasn't been onboarded to LFX Insights.

warp

WDL Analysis Research Pipelines

This project hasn't been onboarded to LFX Insights.
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