A workflow for construction of Gene Expression count Matrices (GEMs). Useful for Differential Gene Expression (DGE) analysis and Gene Co-Expression Network (GCN) construction
☆37Nov 25, 2024Updated last year
Alternatives and similar repositories for GEMmaker
Users that are interested in GEMmaker are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Fast-SG: An alignment-free algorithm for ultrafast scaffolding graph construction from short or long reads.☆23May 29, 2018Updated 8 years ago
- viral-ngs: complete pipelines☆74Jul 9, 2026Updated last week
- Framework for efficient high-dimensional association analyses.☆19Feb 11, 2026Updated 5 months ago
- Work from the book 'Advanced Python for Biologists'☆15Sep 12, 2018Updated 7 years ago
- Nextflow pipeline encapsulating workflows for analyzing expansion lattice light-sheet microscopy (ExLLSM) imagery☆13Apr 15, 2026Updated 3 months ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Nextflow workshop materials November 2025☆19Jun 9, 2026Updated last month
- Data and additional information from the initial MAS-ISO-seq study, "High-throughput RNA isoform sequencing using programmable cDNA conca…☆12Feb 24, 2023Updated 3 years ago
- Setup your win-only applications on linux☆12May 31, 2020Updated 6 years ago
- Consensus assembly and variant calling workflow.☆12May 26, 2015Updated 11 years ago
- ☆14Jul 5, 2022Updated 4 years ago
- GAME was designed for the functional genomics community to create seamless communication across pre-trained models and genomics datasets.…☆21Jul 12, 2026Updated last week
- Benchmark structural variant calls against a reference set☆18Jan 26, 2026Updated 5 months ago
- ☆17Updated this week
- ☆13Feb 16, 2019Updated 7 years ago
- Serverless GPU API endpoints on Runpod - Get Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- ☆22Nov 24, 2025Updated 7 months ago
- ☆24Jan 25, 2024Updated 2 years ago
- Generate beautiful API documentation for Nextflow pipelines☆18May 29, 2026Updated last month
- Methods and recipes for Plant Genome Annotation - Transposable Elements☆21Jun 10, 2025Updated last year
- Convert GWAS summary statistics to VCF☆49Apr 13, 2026Updated 3 months ago
- Command line tool for Wave containers provisioning service☆19Jul 14, 2026Updated last week
- Nextflow basic tutorial for newbie users☆34Jun 17, 2018Updated 8 years ago
- A software to assemble chloroplast and mitochodrial genomes using PacBio data☆40May 21, 2020Updated 6 years ago
- ☆24May 22, 2025Updated last year
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Docker image as base for building full MAKER image☆11Feb 28, 2022Updated 4 years ago
- a place for GA4GH-related wiki pages☆17Aug 3, 2017Updated 8 years ago
- Nextflow RNA-Seq Best Practice analysis pipeline, used at the SciLifeLab National Genomics Infrastructure.☆51Aug 20, 2018Updated 7 years ago
- Python library for identification and masking of low-complexity regions in nucleotide sequences☆13Updated this week
- A demo and tutorial for how to use git and singularity to make your research more portable and reproducible☆26Oct 13, 2016Updated 9 years ago
- Convert CWL to WDL☆17Oct 17, 2016Updated 9 years ago
- Analysis pipeline for the identification of viral integration events in genomes using a chimeric read approach.☆18Jun 3, 2025Updated last year
- Pipeline for the identification of extrachromosomal circular DNA (ecDNA) from Circle-seq, WGS, and ATAC-seq data that were generated from…☆35Jun 29, 2026Updated 3 weeks ago
- Software for Quantifying Interspersed Repeat Expression☆68Jun 20, 2022Updated 4 years ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- ☆11Dec 12, 2014Updated 11 years ago
- An easy way to run BioNano genomic analysis☆27Apr 9, 2021Updated 5 years ago
- Transcriptome State Perturbation Generator☆13Dec 3, 2021Updated 4 years ago
- An R package for Poisson multivariate adaptive shrinkage.☆11Apr 15, 2024Updated 2 years ago
- Method to optimally select samples for validation and resequencing☆30Apr 6, 2021Updated 5 years ago
- Examples showing how to configure Nextflow to run with Wave containers provisioning service☆21Apr 16, 2026Updated 3 months ago
- Easy to Annotate Helitrons Unix-like command line.☆10Feb 14, 2024Updated 2 years ago