GitHub topics: bioinformatics-pipeline
renatosantos98/ont-benchmark
Supporting data for the publication "Investigating the performance of Oxford Nanopore long-read sequencing with respect to Illumina microarrays and short-read sequencing"
Language: Jupyter Notebook - Size: 199 MB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 5 - Forks: 1
stjude-rust-labs/sprocket-action
Run Sprocket WDL document validation as part of a CI/CD pipeline with GitHub Actions.
Language: Shell - Size: 387 KB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 6 - Forks: 1
miano-fc/MaxQuant-Tools
Tools for preprocessing and normalizing results of MaxQuant experiments and their respective controls from a run by normalizing data from the output peptides.txt file.
Language: Python - Size: 51.8 KB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 1 - Forks: 0
ricardo-romero-ochoa/kinasepred
Kinase Inhibitor Bioactivity & Toxicity Prediction Platform
Language: Python - Size: 18.8 MB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 1 - Forks: 0
twoXes/awesome-structural-bioinformatics
Structural Bioinformatics is awesome. Throw your textbook in the garbage, light the garbage can on fire, and blend the ashes into your cold brew almond milk latte and read this.
Language: Python - Size: 31.1 MB - Last synced at: about 2 months ago - Pushed at: about 2 years ago - Stars: 71 - Forks: 10
niekwit/crispr-screens
Snakemake workflow for CRISPR-Cas9 screen analysis
Language: Python - Size: 35.3 MB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 6 - Forks: 1
MDU-PHL/bohra
A pipeline for bioinformatics analysis of bacterial genomes
Language: Nextflow - Size: 356 MB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 28 - Forks: 4
CogDisResLab/drugfindR
Repository holding the code for the drugfindR R package
Language: R - Size: 7.13 MB - Last synced at: 2 months ago - Pushed at: 2 months ago - Stars: 8 - Forks: 3
vipese/GeneticAssociation
Pipeline for genetic association analysis designed for Stanford University Mignot Lab
Language: Roff - Size: 416 KB - Last synced at: 1 day ago - Pushed at: over 5 years ago - Stars: 0 - Forks: 0
Umeshkumarku1/Zoonoticus
Zoonoticus is a comprehensive tool for predicting zoonotic potential, antimicrobial resistance risk, and virulence profiles of bacterial genomes. Powered by Zento, it helps researchers rapidly identify bacteria capable of crossing species barriers and posing public health threats.
Language: Python - Size: 2.68 MB - Last synced at: 2 months ago - Pushed at: 2 months ago - Stars: 0 - Forks: 0
hillerlab/make_lastz_chains
Portable solution to generate genome alignment chains using lastz
Language: Python - Size: 3.46 MB - Last synced at: 2 months ago - Pushed at: 2 months ago - Stars: 55 - Forks: 9
gabbyz297/GWAS-Analysis
A Genome-Wide Association Study (GWAS) is an analysis used to identify associations between a genotype and an observed phenotype. This pipeline will show how to run a GWAS from raw sequence data.
Size: 92.8 KB - Last synced at: 2 months ago - Pushed at: 2 months ago - Stars: 1 - Forks: 0
faryabiLab/dockerize-workflows
Genomic data processing pipelines written in WDL making use of Docker containers to ensure stability.
Language: WDL - Size: 259 KB - Last synced at: 2 months ago - Pushed at: 2 months ago - Stars: 2 - Forks: 0
conda-incubator/conda-env-builder
Build and maintain multiple custom conda environments all in one place.
Language: Scala - Size: 125 KB - Last synced at: about 2 months ago - Pushed at: 7 months ago - Stars: 38 - Forks: 4
broadinstitute/fungal-wdl
Broad fungal method repository
Language: WDL - Size: 95.7 KB - Last synced at: 2 months ago - Pushed at: 2 months ago - Stars: 7 - Forks: 4
simonguld/CellSegmentationTracker
A Python module intended to make cell segmentation, tracking and subsequent (mostly biophysical) statisticial analysis easy
Language: Jupyter Notebook - Size: 1.8 GB - Last synced at: 2 months ago - Pushed at: 2 months ago - Stars: 13 - Forks: 2
HCL-HUBL/SAMI
Splicing Analysis with Molecular Indexes
Language: R - Size: 71.9 MB - Last synced at: 2 months ago - Pushed at: 2 months ago - Stars: 0 - Forks: 1
bobeobibo/phigaro
Phigaro is a scalable command-line tool for predicting phages and prophages
Language: HTML - Size: 6.8 MB - Last synced at: 4 days ago - Pushed at: over 1 year ago - Stars: 52 - Forks: 15
cohenoa/An-Open-Source-Computational-Tool-for-Measuring-Bacterial-Biofilm-Morphology-and-Growth-Kinetics
Code to accompany the paper: ”An Open-Source Computational Tool for Measuring Bacterial Biofilm Morphology and Growth Kinetics upon One-Sided Exposure to an Anti-Microbial Source”
Language: Python - Size: 160 MB - Last synced at: 2 months ago - Pushed at: 2 months ago - Stars: 1 - Forks: 0
Replicon-genetics/rg_exploder_shared
Python code for generating synthetic sequence data: DNASEQ and RNASEQ reads for use as standards in genomics data analysis pipelines
Language: Python - Size: 209 MB - Last synced at: 2 months ago - Pushed at: 2 months ago - Stars: 0 - Forks: 0
JetBrains-Research/snakecharm
Plugin for PyCharm / IntelliJ IDEA Platform IDEs which adds support for Snakemake language.
Language: Python - Size: 3.91 MB - Last synced at: about 1 month ago - Pushed at: 2 months ago - Stars: 62 - Forks: 7
AndreaMariani-AM/ChIPseq_snakemake
ChIPseq pipeline for Pasini's lab written in snakemake
Language: Python - Size: 117 KB - Last synced at: 2 months ago - Pushed at: 2 months ago - Stars: 0 - Forks: 0
mehdiborji/nanoranger
simplified cellranger for long-read data
Language: Python - Size: 50.3 MB - Last synced at: 2 months ago - Pushed at: 2 months ago - Stars: 18 - Forks: 5
adnantariq6400/Identification-of-key-taxonomic-and-metabolic-players
Metagenome Project
Language: Shell - Size: 7.81 KB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 0 - Forks: 0
Sentieon/sentieon-google-genomics
Run Sentieon pipelines on Google Cloud Platform
Language: Shell - Size: 127 KB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 6 - Forks: 7
nmendozam/kir-mapper
Nextflow pipeline for kir-mapper map
Language: Nextflow - Size: 3.91 KB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 0 - Forks: 0
YichaoOU/HemTools
HemTools: a collection of NGS pipelines and bioinformatic analyses
Language: Python - Size: 876 MB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 69 - Forks: 21
pbradleylab/2023-anvio-comparison
Comparison of multiple annotation methods (Kofamscan, Microbeannotator, and anvi'o) using multiple prokaryotic families found across varying environments.
Language: R - Size: 242 KB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 1 - Forks: 0
CDCgov/seqsender
Automated Pipeline to Generate FTP Files and Manage Submission of Sequence Data to Public Repositories
Language: Python - Size: 261 MB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 35 - Forks: 14
dieterich-lab/Baltica
Baltica: integrated differential junction usage
Language: R - Size: 57.6 MB - Last synced at: 3 months ago - Pushed at: over 2 years ago - Stars: 10 - Forks: 3
Aaryesh-AD/Bacterial-Genomics-Pipeline-BIOL7210
A Nextflow pipeline for bacterial genome assembly, annotation, and functional gene discovery developed as part of GT BIOL7210 Computational Genomics Course.
Language: Nextflow - Size: 391 KB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 0 - Forks: 0
bioinfo-core-BGU/neatseq-flow
A Lightweight Software for Efficient Execution of High Throughput Sequencing Workflows
Language: Python - Size: 3.75 MB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 3 - Forks: 4
Alepidoptera7/assembly_scaffold_BLAST
Algorithm to parse, assemble and align genomic sequences by use machine learning techniques. The resulting sequences are used to form NCBI-BLAST respects and return sequence homologs.
Language: Python - Size: 8.79 KB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 0 - Forks: 0
sanger-pathogens/Roary
Rapid large-scale prokaryote pan genome analysis
Language: Perl - Size: 17.7 MB - Last synced at: 3 months ago - Pushed at: about 3 years ago - Stars: 340 - Forks: 190
soedinglab/transannot
TransAnnot - a fast transcriptome annotation pipeline
Language: C - Size: 78.6 MB - Last synced at: 2 months ago - Pushed at: 5 months ago - Stars: 15 - Forks: 1
nickjcroucher/gubbins
Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins
Language: Python - Size: 9.69 MB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 184 - Forks: 53
Ddafnoudis/Building-bioinformatic-workflows
Building bionformatics workflows using bash scripting.
Language: Shell - Size: 5.86 KB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 0 - Forks: 0
nsalomonis/altanalyze
AltAnalyze is a multi-functional and easy-to-use software package for automated single-cell and bulk gene and splicing analyses. Easy-to-use precompiled graphical user-interface versions available from our website.
Language: Python - Size: 264 MB - Last synced at: 18 days ago - Pushed at: almost 3 years ago - Stars: 103 - Forks: 32
ZealousGeneticist/cartoflow
A Python workflow for taking chemicals, finding the genes they interact with, and mapping the communities of genetic interactions.
Language: Python - Size: 63.5 KB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 2 - Forks: 0
NorwegianVeterinaryInstitute/DemultiplexRawSequenceData
A workflow automation script: demultiplex the library sequence, run quality checks, deliver to archiving and processing afterwards
Language: Python - Size: 501 MB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 1 - Forks: 0
ayoraind/strainberry
Nextflow Pipeline for Strain Resolution from Long Reads
Language: Nextflow - Size: 21.5 KB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 1 - Forks: 0
dvklopfenstein/ReactomePy
Explore biomolecular pathways in Reactome from the command-line or a Python script
Language: Python - Size: 17.1 MB - Last synced at: 3 months ago - Pushed at: 9 months ago - Stars: 23 - Forks: 4
fomightez/pdbepisa-binder
Using data from PDBePISA with the convenience of Python and Jupyter.
Language: Jupyter Notebook - Size: 1.48 MB - Last synced at: 3 months ago - Pushed at: 7 months ago - Stars: 6 - Forks: 1
rribeiro-sci/SSBtoolkit
Simulation of pharmacodynamic models of drug-GPCR (class A) interactions.
Language: Python - Size: 12.8 MB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 1 - Forks: 1
DavideBrex/SpikeFlow
Pipeline to analyse ChIP-Rx data, i.e ChIP-Seq with reference exogenous genome spike-in normalization
Language: Python - Size: 723 MB - Last synced at: 3 months ago - Pushed at: 5 months ago - Stars: 11 - Forks: 0
SosaAElie/PersonalR-DTools
A series of automations intended to standardize research workflow.
Language: JavaScript - Size: 20.8 MB - Last synced at: 2 months ago - Pushed at: 2 months ago - Stars: 0 - Forks: 0
cihga39871/Pipelines.jl
A lightweight and powerful Julia package for computational pipelines and workflows.
Language: Julia - Size: 1.05 MB - Last synced at: 3 days ago - Pushed at: 5 months ago - Stars: 49 - Forks: 2
aofarrel/clockwork-wdl
WDLization of clockwork
Language: WDL - Size: 13.8 MB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 0 - Forks: 0
pwwang/biopipen
A set of processes/pipelines for bioinformatics
Language: R - Size: 42.7 MB - Last synced at: 9 days ago - Pushed at: 9 days ago - Stars: 13 - Forks: 5
Sentieon/sentieon-dnascope-ml
Sentieon DNAscope + Machine Learning Model
Language: Shell - Size: 111 KB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 12 - Forks: 4
pepkit/looper
A job submitter for Portable Encapsulated Projects
Language: Python - Size: 4.18 MB - Last synced at: about 22 hours ago - Pushed at: 4 months ago - Stars: 22 - Forks: 7
BCCDC-PHL/routine-assembly
Pipeline for performing routine genome assembly
Language: Nextflow - Size: 79.1 KB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 1 - Forks: 1
jmgs7/16S-SNAPP-py3 Fork of swiftbiosciences/16S-SNAPP-py3
16S SNAPP on Python 3 - version 2
Language: Python - Size: 256 KB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 0 - Forks: 1
ARTbio/tools-artbio
Collection of galaxy tools developed by the artbio-platform at the IBPS (Institut de Biologie Paris-Seine)
Language: Python - Size: 420 MB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 12 - Forks: 18
quadram-institute-bioscience/dadaist1-docs
Legacy docs for Dadaist2 1.x
Size: 4.96 MB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 0 - Forks: 0
Louis-MG/META-DIFF
This is the repository of the pipeline META-DIFF, which detects sequences in differential abundances between two conditions, and annotates them taxonomicaly and functionaly.
Language: Python - Size: 12.9 MB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 0 - Forks: 0
ewels/nf-core-rnaseq Fork of nf-core/rnaseq
See the main fork of this repository here >>>
Language: Nextflow - Size: 71.5 MB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 38 - Forks: 4
pritykinlab/guidescan-cli
a guideRNA database generation tool
Language: C++ - Size: 9.57 MB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 15 - Forks: 5
sguizard/nf-mixcr
A nextflow pipeline for TCR repertoire building with MiXCR
Language: Nextflow - Size: 7.01 MB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 0 - Forks: 0
se7en69/RNA-Seq-Data-Processing-and-Analysis-Pipeline
This pipeline automates essential steps for RNA-Seq data analysis, including quality control, read trimming, alignment to a reference genome, and coverage quantification. It leverages tools like FastQC, fastp, STAR, and bedtools to ensure high-quality results, with MultiQC reports providing an overview at each stage.
Language: Shell - Size: 13.7 KB - Last synced at: 3 months ago - Pushed at: 9 months ago - Stars: 1 - Forks: 0
bioinfonupeb/redemicro-jennefer
Molecular tools applied to the characterization of the vaginal microbiota of climacteric women
Size: 3.91 KB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 0 - Forks: 0
ruppinlab/tcga-wgs-kraken-microbial-quant
Kraken2 + Bracken based pipeline for classifying and quantifying microbial reads from GDC TCGA WGS data
Language: Python - Size: 21.7 MB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 0 - Forks: 1
Kincekara/SNVPhyl_Terra
Terra (WDL) version of SNVPhyl
Language: HTML - Size: 237 KB - Last synced at: 17 days ago - Pushed at: 17 days ago - Stars: 3 - Forks: 0
uc-bd2k/GREIN
GREIN : GEO RNA-seq Experiments Interactive Navigator
Language: HTML - Size: 38.2 MB - Last synced at: about 2 months ago - Pushed at: about 6 years ago - Stars: 49 - Forks: 19
barsnes-group/peptide-shaker-online
Web-based framework for interactive visual analysis of proteomics data
Language: JavaScript - Size: 38.1 MB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 7 - Forks: 2
sanger-pathogens/mlst_check
Multilocus sequence typing by blast using the schemes from PubMLST
Language: Perl - Size: 5.23 MB - Last synced at: 3 days ago - Pushed at: about 3 years ago - Stars: 30 - Forks: 15
stjudecloud/rfcs
Request for Comments (RFCs) on the St. Jude Cloud Project.
Language: Jupyter Notebook - Size: 4.73 MB - Last synced at: 3 months ago - Pushed at: 6 months ago - Stars: 1 - Forks: 2
elbecerrasoto/variants
Variant Calling Snakemake Pipeline
Language: Python - Size: 391 KB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 1 - Forks: 0
FabbriniMarco/microbAIDeR
An ensemble of functions for easier and quicker preliminary microbiome analyses
Language: R - Size: 276 KB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 1 - Forks: 0
gabrielvpina/ViewVir
ViewVir - A pipeline for viral diversity analysis
Language: Python - Size: 14.4 MB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 0 - Forks: 0
koszullab/hicstuff Fork of baudrly/hicstuff
Simple library/pipeline to generate and handle Hi-C data.
Language: Python - Size: 10.9 MB - Last synced at: 25 days ago - Pushed at: 7 months ago - Stars: 37 - Forks: 7
mattgalbraith/BaSH_seq
This pipeline processes high-throughput sequencing data (PE/SE) through QC,trim/filter,alignment,counting etc via sequential stages, with individual samples run in parallel via submission to a Slurm queue.
Language: Shell - Size: 154 KB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 1 - Forks: 0
bioinfonupeb/redemicro-thayane
Metagenomic characterization of the intestinal microbiota of postmenopausal Brazilian women.
Language: Jupyter Notebook - Size: 110 MB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 0 - Forks: 0
BehRoooz/scRNA-Seq-Pipeline
Nextflow-based pipeline for processing single-cell RNA sequencing (scRNA-Seq) data using Scanpy.
Language: Python - Size: 533 KB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 0 - Forks: 0
imrobintomar/rna-seq-annotator
A robust Python tool for annotating RNA sequencing data using standardized ontologies and classification systems.
Language: Python - Size: 13.7 KB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 0 - Forks: 0
cvigilv/ResidueFisher
Bioinformatics protocol that aims at mining information at the sequence and structure level of protein chain to detect possible evolutionary conserved residues.
Language: Python - Size: 33.3 MB - Last synced at: 3 months ago - Pushed at: about 2 years ago - Stars: 6 - Forks: 1
ZuberLab/vbcf-nf
Retrieve Files from VBCF Sequencing Facility
Language: Nextflow - Size: 4.88 KB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 1 - Forks: 1
BCCDC-PHL/kma-cgmlst
A cgMLST pipeline based on the KMA aligner
Language: Nextflow - Size: 40 KB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 4 - Forks: 2
CDCgov/NCHHSTP-DTBE-Varpipe-WGS
This repository contains an analysis pipeline developed to characterize WGS output
Language: HTML - Size: 1.29 GB - Last synced at: 4 months ago - Pushed at: 5 months ago - Stars: 7 - Forks: 5
metabaRfactory/metabaR
metabaR is an R package to curate and visualise DNA metabarcoding data after basic bioinformatics analyses.
Language: HTML - Size: 135 MB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 14 - Forks: 3
marangiop/diff_BUM_HMM
Bayesian modelling approach for detecting RNA flexibility changes in high-throughput structure probing data under different conditions, based on an extension of the BUM-HMM method.
Language: HTML - Size: 101 MB - Last synced at: 3 months ago - Pushed at: over 2 years ago - Stars: 11 - Forks: 1
yonesora56/plant2human
Analysis workflow for novel gene search based on structural similarity search
Language: Jupyter Notebook - Size: 44.1 MB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 4 - Forks: 0
OmarOakheart/nPhase
Ploidy agnostic phasing pipeline and algorithm
Language: Python - Size: 50.5 MB - Last synced at: 16 days ago - Pushed at: over 1 year ago - Stars: 45 - Forks: 5
Gabrielstav/HiEdge
Configurable Hi-C pipeline that is easy to use
Language: Python - Size: 328 KB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 3 - Forks: 1
edn-es/nf-pgcache
a postgresql cache for Nextflow
Language: Groovy - Size: 248 KB - Last synced at: 4 months ago - Pushed at: 5 months ago - Stars: 0 - Forks: 0
adigorla/xgap
xGAP is an efficient, modular, extensible and fault-tolerant pipeline for massively parallelized genomic analysis/variant discovery from next-generation DNA sequencing data.
Language: Python - Size: 113 KB - Last synced at: 16 days ago - Pushed at: over 4 years ago - Stars: 10 - Forks: 2
JoshuaIszatt/phanta
Illumina short read assembly data pipeline for phage
Language: Python - Size: 171 KB - Last synced at: 3 months ago - Pushed at: 5 months ago - Stars: 0 - Forks: 0
stjudecloud/docs-archive 📦
Documentation on St. Jude Cloud.
Language: Shell - Size: 413 MB - Last synced at: 5 months ago - Pushed at: about 3 years ago - Stars: 7 - Forks: 6
MPUSP/snakemake-bacterial-riboseq
Bacterial-Riboseq: A Snakemake workflow for the analysis of riboseq data in bacteria.
Language: Python - Size: 943 KB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 2 - Forks: 0
RubenVG02/NonModelGOToolkit
This project features a pipeline for Gene Ontology (GO) enrichment analysis on candidate genes with functional transcriptome annotations. It identifies enriched Biological Processes (BP), Cellular Components (CC), and Molecular Functions (MF), using R and Python to create 2D treemaps and interactive 3D visualizations of GO terms.
Language: Python - Size: 68.5 MB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 1 - Forks: 0
J22160/Pangenomics_Pipeline
A sophisticated bioinformatics pipeline for bacterial pangenome analysis, integrating WGS and RNA-Seq data. It enhances genome completeness with hybrid assemblies, identifies core/accessory genes, and enables pangenome-level transcriptomic profiling. Built on Snakemake, it is scalable, customizable, and optimized for strain-specific insights.
Language: Python - Size: 40 KB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 0 - Forks: 0
J22160/DualRNASeq_Pipeline
The DualRNASeq Pipeline is a comprehensive, automated workflow designed to analyze host-pathogen dualRNA-Seq data, offering insights into gene expression dynamics during infection. Its modular Snakemake framework ensures reproducibility, scalability, and seamless execution on local machines, HPC clusters, or cloud platforms.
Language: Python - Size: 39.1 KB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 0 - Forks: 0
EuracBiomedicalResearch/prs_pipeline
Pipeline for PRS computation integrating diverse PRS algorithms into a unique Snakemake workflow.
Language: R - Size: 247 KB - Last synced at: 12 days ago - Pushed at: 12 days ago - Stars: 1 - Forks: 0
emilhaegglund/TADA
A Snakemake-workflow to sample taxa from sequence databases based on taxonomical or phylogenetic information
Language: Python - Size: 119 KB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 10 - Forks: 2
MPUSP/snakemake-ont-bacterial-variants
A Snakemake workflow for the identification of variants in bacterial genomes using nanopore long-read sequencing.
Language: Python - Size: 28.8 MB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 3 - Forks: 0
georgiesamaha/configBuilder-nf
Nextflow config builder scripts for supported HPC infrastructures.
Language: Python - Size: 82 KB - Last synced at: 3 months ago - Pushed at: over 1 year ago - Stars: 8 - Forks: 1
Julio92-C/hosMicro
An interactive and user-friendly web application to explore the hospital microbiome and genetic makeup
Language: R - Size: 1.98 MB - Last synced at: 6 months ago - Pushed at: 6 months ago - Stars: 0 - Forks: 0
DomeJoyce/HBVIF
HBVIF (HBV Integration Finder) pipeline was developed to detect the presence of HBV-DNA integration sites in the host (human) genome directly from raw reads.
Language: Shell - Size: 4 MB - Last synced at: 6 months ago - Pushed at: 6 months ago - Stars: 2 - Forks: 0
daormar/debasher
DeBasher: a Flow-Based Programming Extension for Bash
Language: Shell - Size: 4.42 MB - Last synced at: 6 months ago - Pushed at: 6 months ago - Stars: 3 - Forks: 2
DEIB-GECO/PyGMQL
Python Library for data analysis based on GMQL
Language: Python - Size: 43.4 MB - Last synced at: 13 days ago - Pushed at: over 3 years ago - Stars: 14 - Forks: 5
