fmalmeida

puter

🌐 The Internet OS! Free, Open-Source, and Self-Hostable.

Kingfisher

A lightweight, pure-Swift library for downloading and caching images from the web.

uv

An extremely fast Python package and project manager, written in Rust.

uPlot

📈 A small, fast chart for time series, lines, areas, ohlc & bars

patchwork

The Composer of ggplots

t-rec-rs

Blazingly fast terminal recorder that generates animated gif images for the web written in rust

sgpt

SGPT is a command-line tool that provides a convenient way to interact with OpenAI models, enabling users to run queries, generate shell commands and produce code directly from the terminal.

NextPolish

Fast and accurately polish the genome generated by long reads.

intervene

Intervene: a tool for intersection and visualization of multiple genomic region and gene sets

odp

oxford dot plots

squigualiser

Visualise and analyse nanopore (ONT) raw signals

Easyfig

Development version of Easyfig

fq

Command line utility for manipulating Illumina-generated FASTQ files.

beav

BEAV: Bacterial Element Annotation reVamped

RabbitTClust

RabbitTClust: enabling fast clustering analysis of millions bacteria genomes with MinHash sketches

floria

Strain-level haplotyping for metagenomes with short or long-reads.

Bactabolize

wgscovplot

The Whole Genome Sequencing Coverage Plot (wgscovplot) is a tool to generate HTML Interactive Coverage Plot given coverage depth information, variants and DNA Gene features

disty

Disty McMatrixface - compute a distance matrix from a core genome alignment file

plot_phylo

synteny

A Nextflow pipeline for running synteny analysis.

dittoViz

Color blindness friendly visualization of any data in a data.frame format. Like dittoSeq, but not omics-structure restricted

nf-aggregate

Pipeline to aggregate pertinent metrics across pipeline runs on the Seqera Platform (beta)

phammseqs

Assort phage protein sequences into phamilies using MMseqs2

HyLight

HyLight is a strain aware de novo assembly method based on the overlap-layout-consensus (OLC) paradigm that leverages the strengths of NGS and 3rd generation sequencing to rapidly and accurately assemble highly complex metagenomic sequencing data.

phamclust

Pham-based genome clustering

jaccard

Statistical test of similarity between binary data using the Jaccard/Tanimoto coefficients

ena-download

nf-references

nf-core-genomeeval

A comprehensive assembly evaluating pipeline