Stars
3
Forks
3
Language
Nextflow
Last Updated
Oct 05, 2023
Similar Repos
| Repo | Language | Stars | Description | Updated At |
|---|---|---|---|---|
| Perl | 378 | :scissors: :zap: Rapid haploid variant calling and core genome alignment | Apr 22, 2023 | |
| wdl | 3 | Workflows used for processing whole genome sequence data + germline variant calling. | Jul 19, 2022 | |
| Nextflow | 20 | Whole Exome/Whole Genome Sequencing alignment pipeline | Oct 18, 2022 | |
| Python | 29 | 10x Genomics Linked-Read Alignment, Variant Calling, Phasing, and Structural Variant Calling | Feb 15, 2023 | |
| JavaScript | 33 | A Whole Genome Alignment Visualization Tool for the Web | Feb 03, 2023 | |
| Python | 7 | CoVarPlot - Covarage Variant Plots for viral whole genome sequencing | May 06, 2022 | |
| Python | 2 | Telomeasure estimates average telomere length from whole genome sequencing (WGS) BAM files. | Jun 14, 2022 | |
| TypeScript | 138 | Viral genome alignment, mutation calling, clade assignment, quality checks and phylogenetic placement | Aug 19, 2022 | |
| Shell | 5 | Optimised pipeline to process whole genome sequence data from fastq to BAM on NCI Gadi | Mar 22, 2022 | |
| Python | 3 | Clair3 - Integrating pileup and full-alignment for high-performance long-read variant calling | Apr 25, 2023 | |
| Rust | 15 | a tool to filter sites in a FASTA-format whole-genome pseudo-alignment | Apr 02, 2023 | |
| Shell | 10 | The EnsembleVariantCallingPipeline takes files in FASTQ or BAM format and performs SNV and INDEL variant … | Apr 22, 2022 | |
| Shell | 11 | NGS DNA best practice pipeline for Illumina sequencing - alignment, variant calling, annotation and QC | Apr 06, 2022 | |
| Julia | 20 | Alignment-based retrieval and concatenation of phylogenetic markers from whole genome sequence (WGS) data | Feb 08, 2023 | |
| Shell | 3 | A collection of scripts to run variant aggregation tests from whole-genome sequencing data. | Jun 07, 2022 | |
| Python | 8 | Transparent and robust SARS-CoV-2 variant calling and lineage assignment with comprehensive reporting. | Jun 02, 2022 | |
| Python | 96 | Runs a combination of tools to generate structural variant calls on whole-genome sequencing data | Jan 28, 2023 | |
| None | 38 | Runs a combination of tools to generate structural variant calls on whole-genome sequencing data | May 31, 2023 | |
| C++ | 60 | sensitive alignment of genomes with high sequence diversity, extensive structural polymorphism and whole-genome duplication variation | Jul 22, 2022 | |
| wdl | 22 | Workflows used for processing whole genome sequence data + germline variant calling. This Repository has … | Apr 20, 2023 | |
| Python | 7 | Calculates distribution of observed fragment sizes (or insert sizes) in various scenarios for structural variant … | May 30, 2019 | |
| Python | 3 | A snakemake workflow for benchmarking variant calling approaches with Genome in a Bottle (GIAB), CHM … | Jan 10, 2023 | |
| Nextflow | 3 | Nextflow pipeline for CNest | Mar 31, 2022 | |
| Nextflow | 4 | None | Jan 12, 2022 | |
| Nextflow | 4 | MTBSeq made simple and easy using Nextflow. | Apr 09, 2022 | |
| Nextflow | 4 | *de novo* orthologous gene predictions from bam + bed or fasta/fastq data | Jul 22, 2021 | |
| Nextflow | 4 | Polygenic Risk Scores Pipeline to calculate genetic risk score for any given phenotype/trait (using PRSice) | Mar 02, 2022 | |
| Nextflow | 4 | The Donald Danforth Plant Science Center Bioinformatics Core Facility public repository | Mar 02, 2020 | |
| Nextflow | 4 | A simple nextflow pipeline for Illumina run metrics (InterOp) and generation of fastq files (bcl2fastq) | May 03, 2022 | |
| Nextflow | 4 | A simple fastp-MultiQC nextflow pipeline | Jul 13, 2022 | |
| Nextflow | 4 | An SARS-CoV-2 bioinformatics pipeline for CLIA validation using Dr. Erin Young's Cecret StaphB pipeline as … | Jan 20, 2022 | |
| Nextflow | 4 | A proof of concept RNA-Seq pipeline with Nextflow | Dec 20, 2018 | |
| Nextflow | 4 | Workflow leveraging the scanpy-scripts package to run Scanpy in a Nextflow workflow | Dec 03, 2020 | |
| Nextflow | 4 | Quantification component for droplet-based studies | Nov 17, 2021 | |
| Nextflow | 4 | None | Jul 20, 2022 | |
| Nextflow | 4 | Nextflow training material for FAANG workshop February 2020 | Apr 29, 2021 | |
| Nextflow | 4 | Nextflow pipeline for BWA, BWA2 and STAR alignments | May 07, 2022 | |
| Nextflow | 4 | Nextflow pipeline for the preprocessing of BAM files based on GATK best practices. Marking duplicates, … | Jul 18, 2022 | |
| Nextflow | 4 | [WIP] Evaluate outcomes from genome editing experiments | Jul 14, 2022 | |
| Nextflow | 4 | Quantitative shotgun MS proteomics | May 05, 2022 | |
| Nextflow | 4 | A pipeline to investigate horizontal gene transfer from NGS data | Jun 28, 2022 | |
| Nextflow | 4 | Genome annotation with PacBio Iso-Seq. Takes raw subreads as input, generate Full Length Non Chemiric … | Jun 29, 2022 | |
| Nextflow | 4 | SLAMSeq processing and analysis pipeline | Aug 29, 2021 | |
| Nextflow | 4 | None | May 25, 2022 | |
| Nextflow | 4 | FTW | Aug 23, 2022 | |
| Nextflow | 4 | None | May 22, 2019 | |
| Nextflow | 5 | Spriggan is a pipeline used for assembly of bacterial whole genome sequence data and identification … | Jan 18, 2022 | |
| Nextflow | 5 | GENE-SWitCH project RNA-Seq analysis pipeline | Jun 14, 2022 | |
| Nextflow | 5 | ELIXIR VIB-CRG courses on containers (Docker + Singularity) and Nextflow. | Jan 10, 2022 | |
| Nextflow | 5 | Single cell transcriptome analysis pipeline based on DropEst | Sep 15, 2020 |