peterk87

sublime-nextflow

Nextflow workflow syntax highlighting and snippets for Sublime Text 4

nf-flu

Influenza genome analysis Nextflow workflow

filter_classified_reads

Filter for reads from taxa of interest using Kraken2/Centrifuge classification results.

nf-villumina

Generic viral Illumina sequence analysis pipeline

aodp

Automated Oligonucleotide Design Pipeline (AODP) from https://bitbucket.org/wenchen_aafc/aodp_v2.0_release/

nf-illmap

Nextflow workflow for Illumina read mapping, variant calling and consensus sequence generation using Snippy

vcf_consensus_builder

Build a consensus sequence from a VCF and reference sequence masking low and no coverage positions

viral_verify

wgscovplot

xlavir

Excel report from bioinformatics analysis of viral seq data with nf-core/viralrecon and other Nextflow workflows

blast2xl

BLAST XLSX Report Creator and Sequence Sorter

nf-iav-ont

2024-05-06-ASFV-NC_044954.1-phold-annotation

pharokka and phold annotation of ASFV genome NC_044954.1

bertax

Taxonomic classification of DNA sequences

bioconda-recipes

Conda recipes for the bioconda channel.

cobra

A tool to raise the quality of viral genomes assembled from short-read metagenomes via resolving and joining of contigs fragmented during de novo assembly.

fasta2lmdb

Quickly save FASTA sequences to an LMDB key-value database for rapid retrieval.

guppywuppy

Basic service wrapping PyGuppyClient talking to fast5watch

LANDMark

Implementation of a decision tree ensemble which splits each node using learned linear and non-linear functions.

longshot

diploid SNV caller for error-prone reads

miso-lims

MISO: An open-source LIMS for NGS sequencing centres

multi-package-containers

Testing building mulled containers for multi-requirement tools.

MultiQC

Aggregate results from bioinformatics analyses across many samples into a single report.

nf-core-tools

Python package with helper tools for the nf-core community.

nf-test-datasets

Nextflow workflow test datasets for CI

on_deer_spillback_analyses

package_control_channel

Default channel file for Package Control. Follow the directions at:

runscanner

Monitors directories on the file system containing the output from sequencing instruments (e.g. Illumina) and reports their status and metrics

scovtree

TreeOrdination

Creating and analyzing projections created from decision tree ensembles.