epi2me-labs/wf-amplicon

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Created 7 months ago
Updated 5 months ago

epi2me-labs/wf-amplicon

epi2me-labs

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wf-human-variation

tutorials

Jupyter Notebook

wf-single-cell

wf-artic

ARTIC SARS-CoV-2 workflow and reporting

modbam2bed

wf-transcriptomes

wf-metagenomics

Metagenomic classification of long-read sequencing data

pychopper

cDNA read preprocessing

kraken2-server

wf-bacterial-genomes

Small variant calling for haploid samples

wf-flu

labslauncher

Management application for Epi2MeLabs notebook server

wf-basecalling

wf-human-sv

Structural variation workflow (and benchmarking) using minimap2 and sniffles2

wf-isoforms

ezcharts

fastcat

Simple utility to concatenate .fastq(.gz) files whilst creating a summary of the sequences.

wf-alignment

aplanat

Simplifies bokeh plotting, particularly tailored for JupyterLab

wf-human-snp

Small variant calling for human samples

jupyterlab-autorun-cells

Allows toggling of code cells to execute automatically after opening a notebook.

wf-template

Nextflow workflow template repository

wf-clone-validation

igv-jupyterlab

Integrate Genome Viewer for JupyterLab 3

wf-pore-c

jupyterlab-play-cell-button

Jupyterlab extension attaching a play button to cells

wf-tb-amr

wf-cas9

epi2me-labs.github.io

wf-cnv

jupyterlab-code-cell-collapser

A Google Colab inspired code cell collapser

nanolabs

Nanolabs container stack

wf-mpx

pore-c-py

epi2melabs

Utility functions epi2melabs notebooks

pykraken2

wf-somatic-variation