All Published Workflows

3 workflows that have been reviewed and published

lathe
Show Details View Workflow
A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing
public

public

A tool for generating bacterial genomes from metagenomes with Nanopore long read sequencing First, install miniconda3 The...
bacterial Base-calling Sample annotation mummer2circos tabix BCFtools BEDTools BWA CANU Consensus Flye GUPPY Medaka Minimap2 NanoPlot pilon Racon SAMtools Snakemake pysam metagenomics
Free
39
kipoi-gwas
Show Details View Workflow
Kipoi-GWAS: Streamlined Variant Analysis Workflow with UK BioBank Data, Kipoi.
public

public

Kipoi-GWAS is a snakemake pipeline which downloads UK BioBank association files merges the annotation files with vari...
Sequence variation ID Variant effect prediction Sample annotation Snakemake GWAS study
Free
5
scrnaseq-single-sample-processing-starsolo
Show Details View Workflow
scRNAseq Single Sample Processing STARSolo
public

public

From the R1 and R2 fastq files of a single samples, make a scRNAseq counts matrix, and perform basic QC with scanpy. Then, do...
FASTQ paired sequencing data Clustering Gene expression matrix Sample annotation ANN-SoLo Galaxy SCANPY WorkflowHub scRNAseq data processing
Free