winterlich

winterlich's Stars

• bootandy/dust

  A more intuitive version of du in rust

  Language:Rust9.2k35203197

• dvanoni/notero

  A Zotero plugin for syncing items and notes into Notion

  Language:TypeScript2.5k27260107

• moshi4/pyCirclize

  Circular visualization in Python (Circos Plot, Chord Diagram, Radar Chart)

  Language:Python801104550

• Edinburgh-Genome-Foundry/DnaFeaturesViewer

  :eye: Python library to plot DNA sequence features (e.g. from Genbank files)

  Language:Python608197593

• mummer4/mummer

  Mummer alignment tool

  Language:C++47721203109

• rpetit3/fastq-dl

  Download FASTQ files from SRA or ENA repositories.

  Language:Python29352124

• neherlab/treetime

  Maximum likelihood inference of time stamped phylogenies and ancestral reconstruction

  Language:Jupyter Notebook2331814757

• cruizperez/MicrobeAnnotator

  Pipeline for metabolic annotation of microbial genomes

  Language:Python14288628

• hiruna72/squigualiser

  Visualise and analyse nanopore (ONT) raw signals

  Language:Python1114252

• metagenlab/mummer2circos

  Circular bacterial genome plots based on BLAST or NUCMER/PROMER alignments

  Language:Python10151524

• xavierdidelot/BactDating

  Bayesian inference of ancestral dates on bacterial phylogenetic trees

  Language:R8566717

• metagentools/MetaCoAG

  🚦🧬 Binning Metagenomic Contigs via Composition, Coverage and Assembly Graphs

  Language:Python611417

• gbouras13/plassembler

  Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates

  Language:Python551193

• bpucker/teaching

  This repository gives an overview of my teaching activities. Links to slides and data sets are included. Feel free to re-use my content.

  495010

• cultivarium/MicrobeMod

  A toolkit for exploring prokaryotic methylation and base modifications in nanopore sequencing

  Language:Python434241

• Serka-M/mmlong2

  Bioinformatics pipeline for recovery and analysis of metagenome-assembled genomes

  Language:Python41144

• xinehc/melon

  Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes

  Language:Python33142

• metagenlab/zDB

  zDB: comparative bacterial genomics made easy

  Language:HTML325234

• iqbal-lab-org/pling

  Plasmid analysis using rearrangement distances

  Language:JavaScript315471

• EBI-Metagenomics/mobilome-annotation-pipeline

  Language:Python29370

• Hydro3639/NanoPhase

  Reference-quality genome reconstruction from complex metagenomes (or bacterial isolates) using only Nanopore long reads or both long and short reads (hybrid strategy)

  Language:Shell263131

• MigleSur/GenAPI

  Gene Absence Presence Identification tool.

  Language:Shell263194

• treangenlab/lemur

  Lemur is a tool for rapid and accurate taxonomic profiling on long-read metagenomic datasets

  Language:Python22341

• JamesStimson/transcluster

  Infer transmission clusters from SNP and timing data

  Language:R13164

• lrslab/Hammerhead

  This project is designed to find the potential modifications in bacterial genomes.

  Language:Python13221

• mtisza1/DNA_methylase_finder

  Find Prokaryotic DNA methylase genes in proteins, contigs, or genomes

  Language:Shell9330

• rrwick/Circular-Contig-Extractor

  Language:Python830

• treangenlab/magnet

  Language:Jupyter Notebook8250

• nalarbp/graphsnp

  GraphSNP: Using graph approach to investigate outbreak cluster and transmission in a web browser

  Language:JavaScript7311

• mbhall88/syri

  Synteny and Rearrangement Identifier

  Language:Cython100