Snakemake pipeline for benchmarking cell-type deconvolution methods and deconvolving real bulk RNA-seq data with the use of scRNA-seq datasets
☆15Apr 28, 2025Updated 11 months ago
Alternatives and similar repositories for CATD_snakemake
Users that are interested in CATD_snakemake are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Unified access to several second-generation deconvolution methods☆96Apr 6, 2026Updated last week
- scOntoMatch is an R package which unifies ontology annotation of scRNA-seq datasets to make them comparable across studies☆10Oct 27, 2023Updated 2 years ago
- ☆59Nov 21, 2020Updated 5 years ago
- Interactive eQTL visualizations☆14Dec 12, 2022Updated 3 years ago
- Portable eQTL analysis and statistical fine mapping workflow used by the eQTL Catalogue☆57Mar 24, 2026Updated 3 weeks ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- A wrapper around the sleepwalk package that allows for interactive knn visualizations of an embedding.☆22May 8, 2024Updated last year
- xQTLbiolinks: an R package for integrative analysis with xQTL data☆18Jan 29, 2026Updated 2 months ago
- ☆12Nov 26, 2024Updated last year
- A library for the deconvolution of bulk cell samples using single-cell RNA expression data.☆23Nov 3, 2021Updated 4 years ago
- Pipeline to detect HLA disruption from WES and RNAseq data☆22Feb 17, 2025Updated last year
- ESICCC: A systematic computational framework for evaluation, selection and integration of cell-cell communication inference methods☆13Jan 10, 2024Updated 2 years ago
- ☆17Jul 12, 2024Updated last year
- Framework for analysis of cell-types and Ligand-Receptor cooccurrences☆20Feb 13, 2023Updated 3 years ago
- Saluki, a method to predict mRNA half-lives from sequence☆27Oct 7, 2022Updated 3 years ago
- Wordpress hosting with auto-scaling - Free Trial • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Data Processing Kitchen Sink for proteomics data☆13Updated this week
- Genomic Annotation in Livestock for positional candidate LOci☆13Feb 26, 2021Updated 5 years ago
- Alignability testing and integration of single-cell data☆21Feb 29, 2024Updated 2 years ago
- Helpful handful of programs, completely open-source and free☆11Mar 26, 2021Updated 5 years ago
- AlphaImpute2: pedigree- and population-based genotype imputation☆12Apr 1, 2026Updated 2 weeks ago
- This library can be used for human thermal detection. There are examples to read temperature readings as quickly as possible and read the…☆17Jan 8, 2025Updated last year
- GS3, software for genomic prediction and whole genome Bayesian analysis☆10Dec 18, 2017Updated 8 years ago
- MultiSuSiE is a multi-ancestry extension of the Sum of Single Effects model☆16Feb 15, 2026Updated 2 months ago
- R codes and supporting files for an introductory level course on computational biology.☆13Jun 18, 2020Updated 5 years ago
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- ☆12Sep 8, 2021Updated 4 years ago
- ☆10Dec 4, 2019Updated 6 years ago
- Modeling and predicting single-cell multi-gene perturbation responses with scLAMBDA☆25Mar 20, 2026Updated 3 weeks ago
- Single cell STEM (scSTEM) is a shiny app based R package for visualizing and clustering genes in pseudotime ordered single cell RNA-seq d…☆21Jul 7, 2022Updated 3 years ago
- LongSom tool for long-reads☆11May 20, 2025Updated 10 months ago
- A tool for sample swap identification in high throughput sequencing studies☆10Mar 4, 2025Updated last year
- ☆42Jan 20, 2026Updated 2 months ago
- Tools for the analysis of heterogeneous tissues☆14Aug 24, 2022Updated 3 years ago
- Create a cromphensive report of DEG list coming from any analysis of RNAseq data☆28Oct 11, 2025Updated 6 months ago
- Wordpress hosting with auto-scaling - Free Trial • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Higher level repo for aggregating all of Atlas workflow logic for Single Cell☆14Mar 31, 2026Updated 2 weeks ago
- tools to efficiently retrieve and calculate LD☆33Sep 3, 2021Updated 4 years ago
- ☆10Jan 20, 2023Updated 3 years ago
- Identify major cellular signals in bulk transcriptomes☆11Jun 1, 2022Updated 3 years ago
- Pipeline for RNA and DNA integrated analysis for somatic mutation detection☆14Feb 17, 2026Updated last month
- InstaPrism is an R package for fast implementation of BayesPrism☆52Jun 3, 2024Updated last year
- Non-parametric structural variant genotyper☆15Nov 18, 2021Updated 4 years ago