caspargross

paletteer

🎨🎨🎨 Collection of most color palettes in a single R package

dynamo-release

Inclusive model of expression dynamics with conventional or metabolic labeling based scRNA-seq / multiomics, vector field reconstruction and differential geometry analyses

pepper

PEPPER-Margin-DeepVariant

raven

De novo genome assembler for long uncorrected reads

rich

Rich is a Python library for rich text and beautiful formatting in the terminal.

swan_paper

Repository for commands used for the Swan manuscript

ganttrify

Create beautiful Gantt charts with ggplot2

EpiNano

Detection of RNA modifications from Oxford Nanopore direct RNA sequencing reads (Liu*, Begik* et al., Nature Comm 2019)

master_of_pores

Nextflow pipeline for analysis of direct RNA Nanopore reads

needletail

Fast FASTX parsing and k-mer methods in Rust

fastp

An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)

samplot

Plot structural variant signals from many BAMs and CRAMs

howdoi

instant coding answers via the command line

dropin-minimal-css

Drop-in switcher for previewing minimal CSS frameworks

nanopore-sv-calling

dive

A tool for exploring each layer in a docker image

terminus

salmon

🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment

SVJedi

SV genotyping with long reads

ivar

iVar is a computational package that contains functions broadly useful for viral amplicon-based sequencing.

snippy

:scissors: :zap: Rapid haploid variant calling and core genome alignment

maza-ad-blocking

Local ad blocker. Like Pi-hole but local and using your operating system.

ggpubr

'ggplot2' Based Publication Ready Plots

reticulatus

A snakemake-based pipeline for assembling and polishing long genomes from long nanopore reads

rampart

Read Assignment, Mapping, and Phylogenetic Analysis in Real Time

scm_breeze

Adds numbered shortcuts to the output git status, and much more

HG-CoLoR

Hybrid method based on a variable-order de bruijn Graph for the error Correction of Long Reads

scanpy

Single-cell analysis in Python. Scales to >1M cells.

SVanalyzer

Tools for the analysis of structural variation in genomes

BookStack

A platform to create documentation/wiki content built with PHP & Laravel