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33 search results found

Snapatac ⭐ 227

Analysis Pipeline for Single Cell ATAC-seq

Rapid large-scale prokaryote pan genome analysis

Circlator ⭐ 193

A tool to circularize genome assemblies

Artemis ⭐ 191

Artemis is a free genome viewer and annotation tool that allows visualization of sequence features and the results of analyses within the context of the sequence, and its six-frame translation

Snp Sites ⭐ 173

Finds SNP sites from a multi-FASTA alignment file

Antimicrobial Resistance Identification By Assembly

Gubbins ⭐ 133

Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins

Seq2science ⭐ 132

Automated and customizable preprocessing of Next-Generation Sequencing data, including full (sc)ATAC-seq, ChIP-seq, and (sc)RNA-seq workflows. Works equally easy with public as local data.

V-pipe is a pipeline designed for analysing NGS data of short viral genomes

Rnalysis ⭐ 114

RNA sequencing analysis software

A handy variant calling pipeline generator for whole-genome sequencing (WGS) and whole exom sequencing data (WES) analysis. 一个简易且全面的 WGS/WES 分析流程生成器.

Czid Web ⭐ 75

Infectious Disease Sequencing Platform

Neoantigen Vaccine Pipeline ⭐ 72

Bioinformatics pipeline for selecting patient-specific cancer neoantigen vaccines

Compacted and colored de Bruijn graph construction and querying

Assembly_improvement ⭐ 39

Improve the quality of a denovo assembly by scaffolding and gap filling

de novo virus assembler of Illumina paired reads

DNAscan is a fast and efficient bioinformatics pipeline that allows for the analysis of DNA Next Generation sequencing data, requiring very little computational effort and memory usage.

High-throughput gene to knowledge mapping through massive integration of public sequencing data.

gemBS is a bioinformatics pipeline designed for high throughput analysis of DNA methylation from Whole Genome Bisulfite Sequencing data (WGBS).

Gff3toembl ⭐ 20

Converts Prokka GFF3 files to EMBL files for uploading annotated assemblies to EBI

Plasmidtron ⭐ 16

Assembling the cause of phenotypes and genotypes from NGS data

Bio Tradis ⭐ 15

A set of tools to analyse the output from TraDIS analyses

Sc2 Illumina Pipeline ⭐ 14

Bioinformatics pipeline for SARS-CoV-2 sequencing at CZ Biohub

Mlst_check ⭐ 14

Multilocus sequence typing by blast using the schemes from PubMLST

Saffrontree ⭐ 14

SaffronTree: Reference free rapid phylogenetic tree construction from raw read data

k-mer based Pipeline to identify the Serotype from Illumina NGS reads

Lodestone ⭐ 11

Mycobacterial pipeline

Next-Generation Sequencing (NGS) Data Processing Tool & Library

Genopo a.k.a. F5N - A nanopore sequencing analysis toolkit for Android smartphones https://nanoporetech.com

Albatradis ⭐ 7

Comparative TraDIS analysis

AllMine, a flexible pipeline for Allele Mining. Develloped at INRA's GAFL unit :

Generate the UMI count matrix from CEL-Seq2 sequencing data

Bioinformatics pipeline for nanopore sequencing data

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