Topic: illumina Goto Github
Some thing interesting about illumina
Some thing interesting about illumina
illumina,Allelic decomposition and exact genotyping of highly polymorphic and structurally variant genes
Organization: 0xtcg
Home Page: http://aldy.csail.mit.edu
illumina,SPAdes Genome Assembler
Organization: ablab
Home Page: http://ablab.github.io/spades/
illumina,Fast-SG: An alignment-free algorithm for ultrafast scaffolding graph construction from short or long reads.
User: adigenova
illumina,Snakemake based framework for NGS data analysis and management
Organization: assnake
illumina,:cocktail: Web-based database system for flow cell management (incl. REST API)
Organization: bihealth
illumina,Mapping-based Genome Size Estimation (MGSE) performs an estimation of a genome size based on a read mapping to an existing genome sequence assembly.
User: bpucker
Home Page: https://doi.org/10.1101/607390
illumina,Bioinformatics software list
User: bretonics
illumina,Viral genomics analysis pipelines
Organization: broadinstitute
illumina,An accurate and ultra-fast adapter and quality trimming program for Illumina Next-Generation Sequencing (NGS) data.
User: cihga39871
illumina,Parse Illumina sample sheets with Python
User: clintval
Home Page: https://sample-sheet.rtfd.io
illumina,The first work to provide a comprehensive survey of a prominent set of algorithmic improvement and hardware acceleration efforts for the entire genome analysis pipeline used for the three most prominent sequencing data, short reads (Illumina), ultra-long reads (ONT), and accurate long reads (HiFi). Described in arXiv (2022) by Alser et al. https://arxiv.org/abs/2205.07957
Organization: cmu-safari
illumina,A Snakemake workflow to process single samples or cohorts of Illumina paired-end sequencing data (WGS or WES) using trim galore/bwa/GATK4/parabricks.
Organization: esr-nz
illumina,Multi-platform genome assembly pipeline for Illumina, Nanopore and PacBio reads
User: fmalmeida
Home Page: https://mpgap.readthedocs.io/en/latest/
illumina,A pipeline for preprocessing NGS data from Illumina, Nanopore and PacBio technologies
User: fmalmeida
Home Page: https://ngs-preprocess.readthedocs.io/
illumina,A straightforward and complete next-generation sequencing read simulator
Organization: galantelab
Home Page: https://galantelab.github.io/sandy/
illumina,Bacterial analysis toolbox for full ESKAPE pathogen characterization and profiling the resistome, mobilome, virulome & phylogenomics using WGS
User: gunzivan28
illumina,Clair3 - Symphonizing pileup and full-alignment for high-performance long-read variant calling
Organization: hku-bal
illumina,ClairS - a deep-learning method for long-read somatic small variant calling
Organization: hku-bal
illumina,ClairS-TO - a deep-learning method for tumor-only somatic variant calling
Organization: hku-bal
illumina,Analysis pipelines for genomic sequencing data
User: igordot
Home Page: https://igordot.github.io/sns
illumina,methylR: a single shiny solution from sequencer data to pathway analysis
User: jd2112
Home Page: https://methylr.research.liu.se
illumina,Design degenerated primers on highly variable alignments for full genome sequencing or qPCR. Specifically developed for viruses.
User: jonas-fuchs
illumina,Aligns short reads using dynamic seed size with strobemers
User: ksahlin
illumina,R package for the recount2 project. Documentation website: http://leekgroup.github.io/recount/
Organization: leekgroup
Home Page: https://jhubiostatistics.shinyapps.io/recount/
illumina,Explore and download data from the recount3 project
Organization: lieberinstitute
Home Page: http://lieberinstitute.github.io/recount3
illumina,Get methylation-based age estimates.
User: metamaden
illumina,CheckQC inspects the content of an Illumina runfolder and determines if it passes a set of quality criteria
Organization: molmed
Home Page: http://checkqc.readthedocs.io/
illumina,A collection of publications on comparison of high-throughput sequencing technologies.
User: nazeeefa
illumina,Amplicon sequencing analysis workflow using DADA2 and QIIME2
Organization: nf-core
Home Page: https://nf-co.re/ampliseq
illumina,Demultiplexing pipeline for sequencing data
Organization: nf-core
Home Page: https://nf-co.re/demultiplex
illumina,Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data
Organization: nf-core
Home Page: https://nf-co.re/taxprofiler
illumina,Assembly and intrahost/low-frequency variant calling for viral samples
Organization: nf-core
Home Page: https://nf-co.re/viralrecon
illumina,A pipeline to detect chimeric transcripts derived from genes and transposable elements.
User: oliveirads-hub
illumina,Please switch to https://github.com/OpenGene/defastq
Organization: opengene
illumina,(No maintenance) Next Generation Sequencing Simulation with SNP, Variation and Sequencing Error Integrated
Organization: opengene
illumina,A pipeline to go from raw sequencing data to high quality bins and pretty plots.
Organization: parfreylab
illumina,Comprehensive TE insertion identification with WGS/WES data from multiple sequencing technics
Organization: parklab
illumina,RNA-seq pipeline for raw sequence alignment and transcript/gene quantification.
Organization: pavlidislab
illumina,A tool in order to accurately remove primer sequences from NGS reads in an amplicon experiment
Organization: rivm-bioinformatics
Home Page: https://rivm-bioinformatics.github.io/AmpliGone/
illumina,A modern Python library for BaseSpace Clarity LIMS.
Organization: semaphoresolutions
Home Page: https://s4-clarity-lib.readthedocs.io
illumina,Command line utility for manipulating Illumina-generated FASTQ files.
Organization: stjude-rust-labs
illumina,UPHL's Reference Free Pipeline
Organization: uphl-biongs
illumina,Process Illumina instrument data into SAM/BAM/CRAM files.
Organization: wtsi-npg
Home Page: http://wtsi-npg.github.io/bambi
illumina,16S rDNA V3-V4 amplicon sequencing analysis using dada2, phyloseq, LEfSe, picrust2 and other tools. Demo: https://ycl6.github.io/16S-Demo/
User: ycl6
illumina,A web app for environmental DNA metabarcoding analysis
User: yoann-dufresne
illumina,RNAseq pipeline centered on Salmon
User: yyoshiaki
Home Page: https://doi.org/10.5281/zenodo.4718200
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