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Top 75 ngs open source projects

A pipeline for preprocessing NGS data from Illumina, Nanopore and PacBio technologies

✭ 22

Nextflow Dockerfile workflow bioinformatics pipeline reproducible-research ngs reproducible-science pacbio illumina nanopack trimgalore ngs-preprocess bax2bam porechop pacbio-ccs

Ultrafast sequence typing and gene detection from NGS raw reads

✭ 15

C++c javascript HTML CMake r genomics ngs computational-biology databases dna genes mlst kmer ngs-analysis cgmlst

No description or website provided.

✭ 13

java ngs haplotypes quasispecies pacbio illumina

My bioinfo toolbox

✭ 42

python shell perl c bioinformatics ngs sam bam filtering fastq

A method for circular DNA detection based on probabilistic mapping of ultrashort reads

✭ 45

python ngs circrna structural-variation circrna-prediction genotyping circrnas eccdna ecdna circular-dna microdna

An automated RNA-seq pipeline using Nextflow

✭ 30

shell Nextflow Dockerfile python Makefile awk rna-seq pipeline ngs crg guigo

bac-genomics-scripts

Collection of scripts for bacterial genomics

✭ 39

perl shell science unix opensource bioinformatics annotation genomics ngs sequencing computational-biology microbial-genomics blast microbiology mlst bioperl scripts-collection

RNF framework for NGS: simulation of reads, evaluation of mappers, conversion of RNF-compliant data.

✭ 14

python erlang shell Makefile Dockerfile bioinformatics ngs read-simulation mapper-evaluation ngs-format

A course on Analysing Next Generation (/High Throughput etc..) Sequencing data using Bioconductor

✭ 37

HTML training rna-seq ngs bioconductor

Metagenomics/viromics pipeline that focuses on automation, user-friendliness and a clear audit trail. Jovian aims to empower classical biologists and wet-lab personnel to do metagenomics/viromics analyses themselves, without bioinformatics expertise.

✭ 14

python shell Jupyter Notebook HTML CSS surveillance ngs clinical metagenomics public-health diagnostics viruses erasmus virology rivm viromics virus-typing

An easy-to-use way for running Galaxy workflows.

✭ 19

javascript HTML python CSS docker science workflow bioinformatics reproducible-research ngs easy-to-use galaxy user-friendly workflows bioinformatics-analysis

A workflow for creating small NGS test data sets, useful for continuous integration.

✭ 19

python snakemake ngs snakemake-workflows

Rare variant test software for next generation sequencing data

✭ 114

C++fortran Makefile c r shell python gwas kernel genetics ngs next-generation-sequencing variants meta-analysis genotype umich skat association-analysis rare-variant vcf-files

Mapping-based Genome Size Estimation (MGSE) performs an estimation of a genome size based on a read mapping to an existing genome sequence assembly.

✭ 22

python genomics genome ngs plants pacbio illumina genome-assembly read-mapping ont nanopore-sequencing genome-size-estimation

Recentrifuge: robust comparative analysis and contamination removal for metagenomics

✭ 79

python javascript nanopore ngs metagenomics comparative-genomics kraken contamination clark robustness centrifuge low-biomass lmat

61-75 of 75 ngs projects