Trending repositories for language Nextflow
RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.
RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.
RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.
A single cell transcriptomics pipeline for QC, integration and making the data presentable
Single-cell RNA-Seq pipeline for barcode-based protocols such as 10x, DropSeq or SmartSeq, offering a variety of aligners and empty-droplet detection
Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
A Nextflow pipeline for evaluating assembly quality
Eukaryotic Genome Annotation Pipeline-External caller scripts and documentation
A single cell transcriptomics pipeline for QC, integration and making the data presentable
Single-cell RNA-Seq pipeline for barcode-based protocols such as 10x, DropSeq or SmartSeq, offering a variety of aligners and empty-droplet detection
RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.
Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
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
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
Quantitative mass spectrometry workflow. Currently supports proteomics experiments with complex experimental designs for DDA-LFQ, DDA-Isobaric and DIA-LFQ quantification.
A single cell transcriptomics pipeline for QC, integration and making the data presentable
Repository to host tool-specific module files for the Nextflow DSL2 community!
Nextflow pipeline to analyze PacBio HiFi full-length 16S data
A Meta-barcoding pipeline for analysing ONT data in QIIME2 framework
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.
A single cell transcriptomics pipeline for QC, integration and making the data presentable
A comparative genomics workflow using Nextflow, conda, Julia and R
Eukaryotic Genome Annotation Pipeline-External caller scripts and documentation
Nextflow pipeline to analyze PacBio HiFi full-length 16S data
A pipeline to run and systematically evaluate Multiple Sequence Alignment (MSA) methods.
A Meta-barcoding pipeline for analysing ONT data in QIIME2 framework
AMR++ is a bioinformatic pipeline meant to aid in the analysis of raw sequencing reads to characterize the profile of antimicrobial resistance genes, or resistome.
Genome annotation with PacBio Iso-Seq. Takes raw subreads as input, generate Full Length Non Chemiric (FLNC) sequences and produce a bed annotation.
Single-cell RNA-Seq pipeline for barcode-based protocols such as 10x, DropSeq or SmartSeq, offering a variety of aligners and empty-droplet detection
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
Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data
A single cell transcriptomics pipeline for QC, integration and making the data presentable
Repository to host tool-specific module files for the Nextflow DSL2 community!
Renders a collection of sequences into a pangenome graph. https://doi.org/10.1093/bioinformatics/btae609.
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.
A pipeline to run and systematically evaluate Multiple Sequence Alignment (MSA) methods.
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 ...
A nextflow pipeline for decontamination of short reads, long reads and contigs
A pipeline to simulate sequencing reads, such as Amplicon, Target Capture, Metagenome, and Whole genome data.
Differential abundance analysis for feature/ observation matrices from platforms such as RNA-seq
Renders a collection of sequences into a pangenome graph. https://doi.org/10.1093/bioinformatics/btae609.
Nextflow pipeline to analyze PacBio HiFi full-length 16S data
rnasplice is a bioinformatics pipeline for RNA-seq alternative splicing analysis
AMR++ is a bioinformatic pipeline meant to aid in the analysis of raw sequencing reads to characterize the profile of antimicrobial resistance genes, or resistome.
Genome annotation with PacBio Iso-Seq. Takes raw subreads as input, generate Full Length Non Chemiric (FLNC) sequences and produce a bed annotation.
Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data