|
|
Jupyter Notebook |
4 |
Pipeline for variant annotation using Variant Effect Predictor (VEP) |
Nov 30, 2023 |
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|
Python |
2 |
Workflow to produce variant index annotation for Open Targets Genetics |
May 11, 2022 |
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|
Perl |
93 |
Plugins for the Ensembl Variant Effect Predictor (VEP) |
Jul 31, 2022 |
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C++ |
15 |
Structural variant annotation |
Apr 05, 2023 |
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|
PHP |
2 |
Variant Annotation Tool |
Aug 23, 2015 |
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|
Shell |
2 |
TinDaisy modules for filtering VCF based on VEP annotation |
Sep 10, 2021 |
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|
Python |
31 |
prioritize effects of variant annotations from VEP, SnpEff, et al. |
Sep 14, 2022 |
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|
Nim |
5 |
Filter and select variant consequence annotations from snpEff, VEP or bcftools |
Aug 11, 2022 |
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|
Python |
18 |
Variant annotation and merging pipeline |
Feb 23, 2023 |
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|
C++ |
103 |
Genome browser and variant annotation |
May 17, 2023 |
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|
wdl |
2 |
Metagenome Annotation Workflow |
Apr 25, 2023 |
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|
Jupyter Notebook |
18 |
Metabolome Annotation Workflow |
Apr 20, 2023 |
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|
wdl |
3 |
Variant Effect Predictor Workflow |
Jan 25, 2023 |
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|
Rust |
7 |
VEP-like tool for sequence ontology and HGVS annotation of VCF files |
Apr 14, 2023 |
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|
Go |
7 |
Extremely fast Variant Call Format annotation |
May 18, 2020 |
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|
Python |
41 |
Generic human DNA variant annotation pipeline |
Apr 27, 2023 |
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C++ |
22 |
Anno is a variant annotation tool |
Jul 03, 2022 |
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Nextflow |
3 |
Nextflow pipeline for CNest |
Mar 31, 2022 |
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Nextflow |
4 |
None |
Jan 12, 2022 |
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Nextflow |
4 |
MTBSeq made simple and easy using Nextflow. |
Apr 09, 2022 |
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Nextflow |
4 |
*de novo* orthologous gene predictions from bam + bed or fasta/fastq data |
Jul 22, 2021 |
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Nextflow |
4 |
Polygenic Risk Scores Pipeline to calculate genetic risk score for any given phenotype/trait (using PRSice) |
Mar 02, 2022 |
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Nextflow |
4 |
The Donald Danforth Plant Science Center Bioinformatics Core Facility public repository |
Mar 02, 2020 |
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Nextflow |
4 |
A simple nextflow pipeline for Illumina run metrics (InterOp) and generation of fastq files (bcl2fastq) |
May 03, 2022 |
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Nextflow |
4 |
A simple fastp-MultiQC nextflow pipeline |
Jul 13, 2022 |
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Nextflow |
4 |
An SARS-CoV-2 bioinformatics pipeline for CLIA validation using Dr. Erin Young's Cecret StaphB pipeline as … |
Jan 20, 2022 |
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Nextflow |
4 |
A proof of concept RNA-Seq pipeline with Nextflow |
Dec 20, 2018 |
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Nextflow |
4 |
Workflow leveraging the scanpy-scripts package to run Scanpy in a Nextflow workflow |
Dec 03, 2020 |
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Nextflow |
4 |
Quantification component for droplet-based studies |
Nov 17, 2021 |
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Nextflow |
4 |
None |
Jul 20, 2022 |
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|
Nextflow |
4 |
Nextflow training material for FAANG workshop February 2020 |
Apr 29, 2021 |
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Nextflow |
4 |
Nextflow pipeline for BWA, BWA2 and STAR alignments |
May 07, 2022 |
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Nextflow |
4 |
Nextflow pipeline for the preprocessing of BAM files based on GATK best practices. Marking duplicates, … |
Jul 18, 2022 |
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|
Nextflow |
4 |
[WIP] Evaluate outcomes from genome editing experiments |
Jul 14, 2022 |
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|
Nextflow |
4 |
Quantitative shotgun MS proteomics |
May 05, 2022 |
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|
Nextflow |
4 |
A pipeline to investigate horizontal gene transfer from NGS data |
Jun 28, 2022 |
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Nextflow |
4 |
Genome annotation with PacBio Iso-Seq. Takes raw subreads as input, generate Full Length Non Chemiric … |
Jun 29, 2022 |
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|
Nextflow |
4 |
SLAMSeq processing and analysis pipeline |
Aug 29, 2021 |
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Nextflow |
4 |
None |
May 25, 2022 |
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Nextflow |
4 |
FTW |
Aug 23, 2022 |
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|
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 |
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Nextflow |
5 |
GENE-SWitCH project RNA-Seq analysis pipeline |
Jun 14, 2022 |
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|
Nextflow |
5 |
ELIXIR VIB-CRG courses on containers (Docker + Singularity) and Nextflow. |
Jan 10, 2022 |
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|
Nextflow |
5 |
Single cell transcriptome analysis pipeline based on DropEst |
Sep 15, 2020 |
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Nextflow |
5 |
Coprolite host Identification pipeline |
Aug 18, 2021 |
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|
Nextflow |
5 |
Nextflow pipeline encapsulating workflows for analyzing expansion lattice light-sheet microscopy (ExLLSM) imagery |
May 26, 2022 |
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|
Nextflow |
5 |
None |
Dec 14, 2021 |
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|
Nextflow |
5 |
Assessing the quality of prokaryotic genomes, filtering and dereplication |
Apr 07, 2022 |
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|
Nextflow |
6 |
Pipeline to build a massive tree from global data |
May 24, 2022 |