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shiny_popgen

Shiny apps for teaching Population Genetics

shlide

a slide deck presentation tool written in pure bash

shogun

SHallow shOtGUN profiler

shortstack

ShortStack: Comprehensive annotation and quantification of small RNA genes

shournal

A (file-) journal for your shell

shutitfile

Stupid-simple automation for everyone

sibeliaz

A fast whole-genome aligner based on de Bruijn graphs

simd-visualiser

A tool to graphically visualize SIMD code

simka

Simka and SimkaMin are comparative metagenomics method dedicated to NGS datasets.

simpel

Simulation-based Power Estimation for sequencing studies of Low-prevalence conditions

single-cell-best-practices

This project is work in progress! https://www.sc-best-practices.org

single-cell-review

single-cell-tutorial

Single cell current best practices tutorial case study for the paper:Luecken and Theis, "Current best practices in single-cell RNA-seq analysis: a tutorial"

singlem

Novelty-inclusive microbial community profiling of shotgun metagenomes

sinto

Tools for single-cell data processing

sipprverse

skani

Fast, robust ANI and aligned fraction for metagenomic genomes and contigs.

skani-test

skesa

SKESA assembler

sketch

C++ Implementations of sketch data structures with SIMD Parallelism, including Python bindings

sketchy

Real-time lineage hashing and genotyping of bacterial pathogens from uncorrected nanopore reads :closed_umbrella:

skewit

GC Skew Test for Bacterial Genomes

sleepwalk

Exploring dimension-reduced embeddings

slideseq

slivar

variant expressions, annotation, and filtering for great good.

sllobs-biostats

slurm-mail

Slurm-Mail is a drop in replacement for Slurm's e-mails to give users much more information about their jobs compared to the standard Slurm e-mails.

small-plasmid-nanopore

smoove

structural variant calling and genotyping with existing tools, but, smoothly.

smudgeplot

Inference of ploidy and heterozygosity structure using whole genome sequencing data