Initial recommendations for performing, benchmarking, and reporting single-cell proteomics experiments. The code is distributed under an MIT license.
☆12Apr 5, 2023Updated 2 years ago
Alternatives and similar repositories for SCP_recommendations
Users that are interested in SCP_recommendations are comparing it to the libraries listed below
Sorting:
- Client to access ExperimentHub resources☆11Oct 30, 2025Updated 4 months ago
- SINCERITIES is a tool for inferring gene regulatory networks from time-stamped cross-sectional single cell transcriptional expression pro…☆14Oct 16, 2017Updated 8 years ago
- An R package of High-resolution Informatics Toolbox for Maldi-imaging Proteomics☆19Oct 2, 2025Updated 4 months ago
- A comprehensive R package for label-free proteomics data analysis and modeling☆16Nov 15, 2025Updated 3 months ago
- ☆16Sep 13, 2024Updated last year
- ☆18Apr 17, 2025Updated 10 months ago
- Netbooks is a JupyterHub catalog of use cases in gene regulatory network inference using netZoo methods..☆45Oct 20, 2025Updated 4 months ago
- Automatic selection of number of principal components☆17Jun 27, 2022Updated 3 years ago
- Single cell proteomics data processing☆30Feb 9, 2026Updated 2 weeks ago
- AlphaFind: Discover structure similarity across the entire known proteome☆24Nov 5, 2025Updated 3 months ago
- Matilda is a multi-task framework for learning from single-cell multimodal omics data. Matilda leverages the information from the multi-m…☆22Jun 6, 2025Updated 8 months ago
- Machine learning for Analysis of Proteomics in Spatial biology - Nature Communications☆64Mar 14, 2024Updated last year
- A R/MATLAB package to construct and compare gene regulatory networks from single-cell transcriptomic data☆29Jan 1, 2025Updated last year
- Imputing proteomics data using deep learning models☆32Feb 18, 2026Updated last week
- Snakefile-based process to turn 1.4 million ocular cells into a unified meta-atlas☆26Jan 14, 2024Updated 2 years ago
- ☆39Jan 19, 2026Updated last month
- TISSUE (Transcript Imputation with Spatial Single-cell Uncertainty Estimation) provides tools for estimating well-calibrated uncertainty …☆41Mar 10, 2024Updated last year
- Single Cell Caller (SCcaller) - Identify single nucleotide variations (SNVs) from single cell sequencing data☆35Nov 27, 2024Updated last year
- Assign genotypes to Salmonella Paratyphi A isolates using their whole-genome data.☆10Mar 6, 2025Updated 11 months ago
- A Reproducible Untargeted Metabolomics Data Processing Pipeline☆11Mar 18, 2021Updated 4 years ago
- Closed-loop feedback optogenetic system☆10Apr 5, 2022Updated 3 years ago
- ☆10May 31, 2022Updated 3 years ago
- MATLAB code for simulating the extraction of espresso style coffee☆10Jan 15, 2019Updated 7 years ago
- Repository for the Broad Institute Proteogenomic Data Analysis Center (PGDAC) established by the NIH Clinical Proteomics Tumor Analysis C…☆38Feb 10, 2026Updated 2 weeks ago
- scMEGA: Single-cell Multiomic Enhancer-based Gene regulAtory network inference☆44Sep 20, 2024Updated last year
- Automated Quantitative Trait Locus Analysis (AutoQTL)☆10Mar 5, 2024Updated last year
- Secretory Pathway Reconstruction for Human, CHO, and Mouse☆12Aug 24, 2021Updated 4 years ago
- This is a read-only mirror of the CRAN R package repository. arulesSequences — Mining Frequent Sequences☆10Nov 25, 2025Updated 3 months ago
- Code and dataset for the paper "Deep Learning Based Glaucoma Detection with Cropped Optic Cup and Disc and Blood Vessel Segmentation"☆10Feb 2, 2025Updated last year
- ☆11Feb 26, 2024Updated 2 years ago
- ☆10May 25, 2025Updated 9 months ago
- Single-cell analytic toolbox that offers modular workflows for multi-level cellular annotation and user-friendly analysis reports☆11May 25, 2023Updated 2 years ago
- ☆13Feb 12, 2026Updated 2 weeks ago
- Draw pan- and core-genome curves from proteinortho output☆10Oct 26, 2023Updated 2 years ago
- This repository is used for the HeaDS git and GitHub workshop 2023☆17Oct 6, 2024Updated last year
- Analysis of Global Burden of Disease data☆12Mar 15, 2021Updated 4 years ago
- A web application framework for analysis and visualization of High throughput Sequencing metagenomic data☆10Nov 21, 2016Updated 9 years ago
- INTEND (IntegratioN of Transcriptomic and EpigeNomic Data), a novel algorithm for integrating gene expression and DNA methylation dataset…☆12Dec 12, 2022Updated 3 years ago
- 16S rRNA marker gene upstream and dowstream analysis tutorial for the UCT Hex cluster.☆11Jan 15, 2021Updated 5 years ago