Zymo-Research/pipeline-resources

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Zymo-Research/pipeline-resources

Zymo-Research

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Repository for resources and documentation files of Zymo bioinformatics pipelines

figaro

An efficient and objective tool for optimizing microbiome rRNA gene trimming parameters

docker-bcl2fastq

Docker container for Illumina bcl2fastq

miqScore16SPublic

Repo for public-facing 16s miq score

zymoTransmit

Python script to facilitate uploading COVID-19 test results to departments of health

miqScoreShotgunPublic

Repo for public-facing shotgun MIQ score

VirSieve

Run manager for the VirSieve Pipeline by Zymo Research

aladdin-integration

Documentation and tools to develop pipelines that can be run on Aladdin

miqScoreNGSReadCountPublic

Public repo for miq scoring package for NGS reads

docker-bcl-convert

Docker container for bcl-convert, an Illumina demultiplexing program

service-pipeline-documentation

Public repository to educate customers about bioinformatics pipelines and reports for services we offer

aladdin-rnaseq

Public repository for RNAseq pipeline to be run on Aladdin platform

aladdin-miqScore16S

Nextflow pipeline that calculates MIQ score. Compatible with Aladdin platform

ncbi-pmc-scraper

Jupyter Notebook

aladdin-smrnaseq

Public repository for smRNAseq pipeline compatible with Aladdin platform

VirSieveGATK

GATK functionality for the VirSieve Pipeline by Zymo Research

mirror-seq

The bioinformatics analysis program for Mirror-Seq