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A Nextflow pipeline for evaluating assembly quality
Eukaryotic Genome Annotation Pipeline-External caller scripts and documentation
RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.
A Nextflow pipeline for evaluating assembly quality
Eukaryotic Genome Annotation Pipeline-External caller scripts and documentation
Config files used to define parameters specific to compute environments at different Institutions
RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.
Pipeline to evaluate and validate the accuracy of variant calling methods in genomic research
Pipeline to evaluate and validate the accuracy of variant calling methods in genomic research
Quantitative mass spectrometry workflow. Currently supports proteomics experiments with complex experimental designs for DDA-LFQ, DDA-Isobaric and DIA-LFQ quantification.
A Nextflow pipeline for evaluating assembly quality
A pipeline to run and systematically evaluate Multiple Sequence Alignment (MSA) methods.
A single cell transcriptomics pipeline for QC, integration and making the data presentable
RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.
Eukaryotic Genome Annotation Pipeline-External caller scripts and documentation
Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
Single-cell RNA-Seq pipeline for barcode-based protocols such as 10x, DropSeq or SmartSeq, offering a variety of aligners and empty-droplet detection
Pipeline to evaluate and validate the accuracy of variant calling methods in genomic research
A Nextflow pipeline for evaluating assembly quality
Quantitative mass spectrometry workflow. Currently supports proteomics experiments with complex experimental designs for DDA-LFQ, DDA-Isobaric and DIA-LFQ quantification.