Topic: next-generation-sequencing Goto Github
Some thing interesting about next-generation-sequencing
Some thing interesting about next-generation-sequencing
next-generation-sequencing,SPAdes Genome Assembler
Organization: ablab
Home Page: http://ablab.github.io/spades/
next-generation-sequencing,An efficient FASTQ manipulation suite
User: alastair-droop
next-generation-sequencing,Code repository for the book "Python for the Life Sciences" by Lancaster & Webster
Organization: amberbiology
Home Page: http://pythonforthelifesciences.com/
next-generation-sequencing,Fast taxonomic classification of metagenomic sequencing reads using a protein reference database
Organization: bioinformatics-centre
Home Page: http://kaiju.binf.ku.dk
next-generation-sequencing,Infectious Disease Sequencing Platform
Organization: chanzuckerberg
Home Page: https://czid.org/
next-generation-sequencing,Program for estimating πN/πS, dN/dS, and other diversity measures from next-generation sequencing data
Organization: chasewnelson
next-generation-sequencing,NextGenMap is a flexible highly sensitive short read mapping tool that handles much higher mismatch rates than comparable algorithms while still outperforming them in terms of runtime. This allows analysing large scale datasets even with increased SNP rates or higher error rates (e.g. caused by specialized experimental protocols) and avoids biases caused by highly variable regions in the genome.
Organization: cibiv
next-generation-sequencing,An information-theoretic pipeline for methylation analysis of WGBS data
User: garrettjenkinson
next-generation-sequencing,Yleaf software for human Y-chromosomal haplogroup inference from next generation sequencing data
Organization: genid
next-generation-sequencing,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.
Organization: khp-informatics
next-generation-sequencing,Dockerised Next Generation Sequencing Pipeline (QC, Align, Calling, Annotation)
Organization: khp-informatics
next-generation-sequencing,OmicSelector - Environment, docker-based application and R package for biomarker signiture selection (feature selection) & deep learning diagnostic tool development from high-throughput high-throughput omics experiments and other multidimensional datasets. Initially developed for miRNA-seq, RNA-seq and qPCR.
User: kstawiski
Home Page: https://kstawiski.github.io/OmicSelector/
next-generation-sequencing,Java utilities for Bioinformatics
User: lindenb
Home Page: https://jvarkit.readthedocs.io/
next-generation-sequencing,A tool for genotyping Variable Number Tandem Repeats (VNTR) from sequence data
User: mehrdadbakhtiari
Home Page: http://advntr.readthedocs.io/
next-generation-sequencing,My own tools code for NGS data analysis (Next Generation Sequencing)
User: menghaowei
next-generation-sequencing,DeepMicrobes: taxonomic classification for metagenomics with deep learning
User: microbelab
Home Page: https://doi.org/10.1093/nargab/lqaa009
next-generation-sequencing,Project Manager for NGS data analysis
Organization: ncbi
next-generation-sequencing,AMPtk: Amplicon ToolKit for NGS data (formally UFITS)
User: nextgenusfs
Home Page: http://amptk.readthedocs.io/
next-generation-sequencing,Viral genome alignment, mutation calling, clade assignment, quality checks and phylogenetic placement
Organization: nextstrain
Home Page: https://clades.nextstrain.org
next-generation-sequencing,Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
Organization: nf-core
Home Page: https://nf-co.re/sarek
next-generation-sequencing,NGLess: NGS with less work
Organization: ngless-toolkit
Home Page: https://ngless.embl.de
next-generation-sequencing,Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins
User: nickjcroucher
Home Page: http://nickjcroucher.github.io/gubbins/
next-generation-sequencing,A curated list of resources for learning bioinformatics.
Organization: openbiox
next-generation-sequencing,NGMLR is a long-read mapper designed to align PacBio or Oxford Nanopore (standard and ultra-long) to a reference genome with a focus on reads that span structural variations
User: philres
next-generation-sequencing,A high throughput sequence read toolset using a streaming approach facilitated by Linux pipes
Organization: s4hts
Home Page: https://s4hts.github.io/HTStream/
next-generation-sequencing,Antimicrobial Resistance Identification By Assembly
Organization: sanger-pathogens
Home Page: http://sanger-pathogens.github.io/ariba/
next-generation-sequencing,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
Organization: sanger-pathogens
Home Page: http://sanger-pathogens.github.io/Artemis
next-generation-sequencing,Get assembly statistics from FASTA and FASTQ files
Organization: sanger-pathogens
next-generation-sequencing,Improve the quality of a denovo assembly by scaffolding and gap filling
Organization: sanger-pathogens
next-generation-sequencing,A tool to circularize genome assemblies
Organization: sanger-pathogens
Home Page: http://sanger-pathogens.github.io/circlator/
next-generation-sequencing,Python3 scripts to manipulate FASTA and FASTQ files
Organization: sanger-pathogens
next-generation-sequencing,Converts Prokka GFF3 files to EMBL files for uploading annotated assemblies to EBI
Organization: sanger-pathogens
Home Page: http://sanger-pathogens.github.io/gff3toembl/
next-generation-sequencing,de novo virus assembler of Illumina paired reads
Organization: sanger-pathogens
Home Page: http://sanger-pathogens.github.io/iva/
next-generation-sequencing,Multilocus sequence typing by blast using the schemes from PubMLST
Organization: sanger-pathogens
Home Page: http://sanger-pathogens.github.io/mlst_check/
next-generation-sequencing,
Organization: sanger-pathogens
next-generation-sequencing,Assembling the cause of phenotypes and genotypes from NGS data
Organization: sanger-pathogens
Home Page: https://sanger-pathogens.github.io/plasmidtron/
next-generation-sequencing,Rapid large-scale prokaryote pan genome analysis
Organization: sanger-pathogens
Home Page: http://sanger-pathogens.github.io/Roary
next-generation-sequencing,SaffronTree: Reference free rapid phylogenetic tree construction from raw read data
Organization: sanger-pathogens
Home Page: https://sanger-pathogens.github.io/saffrontree/
next-generation-sequencing,Finds SNP sites from a multi-FASTA alignment file
Organization: sanger-pathogens
Home Page: http://sanger-pathogens.github.io/snp-sites/
next-generation-sequencing,Command line utility for manipulating Illumina-generated FASTQ files.
Organization: stjude-rust-labs
next-generation-sequencing,Command line utility for working with next-generation sequencing files.
Organization: stjude-rust-labs
next-generation-sequencing,An opinionated Cromwell orchestration manager.
Organization: stjudecloud
Home Page: https://stjudecloud.github.io/oliver
next-generation-sequencing,Create WDL documentation using Markdown.
Organization: stjudecloud
next-generation-sequencing,Bioinformatics workflows developed for and used on the St. Jude Cloud project.
Organization: stjudecloud
next-generation-sequencing,SAMStat displays various properties of next-generation sequencing reads stored in SAM/BAM format.
User: timolassmann
next-generation-sequencing,Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)
User: tobiasrausch
Home Page: https://tobiasrausch.com/courses/atac/
next-generation-sequencing,Microsatellite Instability (MSI) detection using high-throughput sequencing data.
Organization: xjtu-omics
next-generation-sequencing,Enhanced and elegant flexible peak/loop/domain -calling and analysis tool for 1D/3D genomic data.
User: yaqiangcao
next-generation-sequencing,Rare variant test software for next generation sequencing data
User: zhanxw
next-generation-sequencing,Query sequence data (VCF/BCF1/BCF2, Tabix, BGEN, PLINK) in R
User: zhanxw
Home Page: http://zhanxw.github.io/seqminer/
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