rnaseq-nf VS rare-disease-wf

Compare rnaseq-nf vs rare-disease-wf and see what are their differences.

rnaseq-nf

A proof of concept of RNAseq pipeline (by nextflow-io)
nextflow rnaseq Genomics
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rare-disease-wf

(WIP) best-practices workflow for rare disease (by brentp)
Variants rare-disease Genomics
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rnaseq-nf rare-disease-wf
1 1
62 56
- -
5.8 0.0
16 days ago about 1 year ago
Nextflow Nextflow
Mozilla Public License 2.0 MIT License
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rnaseq-nf

Posts with mentions or reviews of rnaseq-nf. We have used some of these posts to build our list of alternatives and similar projects.

rare-disease-wf

Posts with mentions or reviews of rare-disease-wf. We have used some of these posts to build our list of alternatives and similar projects. The last one was on 2021-12-06.
  • Ask HN: How to be my own genetic disease researcher for my partner?
    4 projects | news.ycombinator.com | 6 Dec 2021
    Feel free to reach out, username at berkeley edu.

    In open source bioinformatics we strive for reproducible science, which can be difficult in a field with tons of different methods and tools. One approach is to use a workflow language such as Nextflow [0] and Docker/Singularity such that the entire analysis is reproducible, see e.g. [1].

    There is a vibrant community around Nextflow workflows called nf-core [2] which has a rare disease workflow in development [3], come join our slack!

    [0] - https://nextflow.io

    [1] - https://github.com/brentp/rare-disease-wf

    [2] - https://nf-co.re

    [3] - https://nf-co.re/raredisease

What are some alternatives?

When comparing rnaseq-nf and rare-disease-wf you can also consider the following projects:

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

slivar - genetic variant expressions, annotation, and filtering for great good.

rnatoy - A proof of concept RNA-Seq pipeline with Nextflow

rnaseq - RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.

gnomad-browser - Explore gnomAD datasets on the web

patterns - A curated collection of Nextflow implementation patterns

octopus - Bayesian haplotype-based mutation calling

Exomiser - A Tool to Annotate and Prioritize Exome Variants

hlatyping - Precision HLA typing from next-generation sequencing data

rnaseq-nf vs sarek rare-disease-wf vs slivar rnaseq-nf vs rnatoy rare-disease-wf vs sarek rnaseq-nf vs rnaseq rare-disease-wf vs gnomad-browser rnaseq-nf vs patterns rare-disease-wf vs octopus rare-disease-wf vs Exomiser rare-disease-wf vs hlatyping