Topic: nf-core Goto Github
Some thing interesting about nf-core
Some thing interesting about nf-core
nf-core,Workflow management with Nextflow and nf-core
Organization: carpentries-incubator
Home Page: https://carpentries-incubator.github.io/workflows-nextflow/
nf-core,A collection of unexpected challenges and learnings with nextflow and nf-core.
User: midnighter
Home Page: https://midnighter.github.io/nextflow-gotchas/
nf-core,B-cell and T-cell Adaptive Immune Receptor Repertoire (AIRR) sequencing analysis pipeline using the Immcantation framework
Organization: nf-core
Home Page: https://nf-co.re/airrflow
nf-core,Amplicon sequencing analysis workflow using DADA2 and QIIME2
Organization: nf-core
Home Page: https://nf-co.re/ampliseq
nf-core,ATAC-seq peak-calling and QC analysis pipeline
Organization: nf-core
Home Page: https://nf-co.re/atacseq
nf-core,Simple bacterial assembly and annotation pipeline
Organization: nf-core
Home Page: https://nf-co.re/bacass
nf-core,ChIP-seq peak-calling, QC and differential analysis pipeline.
Organization: nf-core
Home Page: https://nf-co.re/chipseq
nf-core,Pipeline for the identification of extrachromosomal circular DNA (ecDNA) from Circle-seq, WGS, and ATAC-seq data that were generated from cancer and other eukaryotic cells.
Organization: nf-core
Home Page: https://nf-co.re/circdna
nf-core,circRNA quantification, differential expression analysis and miRNA target prediction of RNA-Seq data
Organization: nf-core
Home Page: https://nf-co.re/circrna
nf-core,Config files used to define parameters specific to compute environments at different Institutions
Organization: nf-core
Home Page: https://nf-co.re
nf-core,A pipeline for the analysis of CRISPR edited data. It allows the evaluation of the quality of gene editing experiments using targeted next generation sequencing (NGS) data (`targeted`) as well as the discovery of important genes from knock-out or activation CRISPR-Cas9 screens using CRISPR pooled DNA (`screening`).
Organization: nf-core
Home Page: https://nf-co.re/crisprseq
nf-core,Analysis pipeline for CUT&RUN and CUT&TAG experiments that includes QC, support for spike-ins, IgG controls, peak calling and downstream analysis.
Organization: nf-core
Home Page: https://nf-co.re/cutandrun
nf-core,Demultiplexing pipeline for sequencing data
Organization: nf-core
Home Page: https://nf-co.re/demultiplex
nf-core,Differential abundance analysis for feature/ observation matrices from platforms such as RNA-seq
Organization: nf-core
Home Page: https://nf-co.re/differentialabundance
nf-core,A fully reproducible and state-of-the-art ancient DNA analysis pipeline
Organization: nf-core
Home Page: https://nf-co.re/eager
nf-core,A bioinformatics best-practice analysis pipeline for epitope prediction and annotation
Organization: nf-core
Home Page: https://nf-co.re/epitopeprediction
nf-core,(Meta-)genome screening for functional and natural product gene sequences
Organization: nf-core
Home Page: https://nf-co.re/funcscan
nf-core,A pipeline to investigate horizontal gene transfer from NGS data
Organization: nf-core
Home Page: https://nf-co.re/hgtseq
nf-core,Analysis of Chromosome Conformation Capture data (Hi-C)
Organization: nf-core
Home Page: https://nf-co.re/hic
nf-core,Precision HLA typing from next-generation sequencing data
Organization: nf-core
Home Page: https://nf-co.re/hlatyping
nf-core,Image Mass Cytometry analysis pipeline
Organization: nf-core
Home Page: https://nf-co.re/imcyto
nf-core, k-mer similarity analysis pipeline
Organization: nf-core
Home Page: https://nf-co.re/kmermaid
nf-core,Assembly and binning of metagenomes
Organization: nf-core
Home Page: https://nf-co.re/mag
nf-core,Methylation (Bisulfite-Sequencing) analysis pipeline using Bismark or bwa-meth + MethylDackel
Organization: nf-core
Home Page: https://nf-co.re/methylseq
nf-core,Identify and quantify MHC eluted peptides from mass spectrometry raw data
Organization: nf-core
Home Page: https://nf-co.re/mhcquant
nf-core,Protein 3D structure prediction pipeline
Organization: nf-core
Home Page: https://nf-co.re/proteinfold
nf-core,Proteomics label-free quantification (LFQ) analysis pipeline
Organization: nf-core
Home Page: https://nf-co.re/proteomicslfq
nf-core,Quantitative mass spectrometry workflow. Currently supports proteomics experiments with complex experimental designs for DDA-LFQ, DDA-Isobaric and DIA-LFQ quantification.
Organization: nf-core
Home Page: https://nf-co.re/quantms
nf-core,Call and score variants from WGS/WES of rare disease patients.
Organization: nf-core
Home Page: https://nf-co.re/raredisease
nf-core,RNA-seq analysis pipeline for detection of gene-fusions
Organization: nf-core
Home Page: https://nf-co.re/rnafusion
nf-core,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
nf-core,A single-cell RNAseq pipeline for 10X genomics data
Organization: nf-core
Home Page: https://nf-co.re/scrnaseq
nf-core,Pipeline for processing spatially-resolved gene counts with spatial coordinates and image data. Designed for 10x Genomics Visium transcriptomics.
Organization: nf-core
Home Page: https://nf-co.re/spatialvi
nf-core,Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data
Organization: nf-core
Home Page: https://nf-co.re/taxprofiler
nf-core,Test data to be used for automated testing with the nf-core pipelines
Organization: nf-core
Home Page: https://nf-co.re
nf-core,Assembly and intrahost/low-frequency variant calling for viral samples
Organization: nf-core
Home Page: https://nf-co.re/viralrecon
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