BGI-Qingdao / GEM3D_toolkitView external linksLinks
A tool to use stereo-seq GEM and ssDNA to generate single-cell and 3D spatial resolved transtriptomics data
☆13Oct 12, 2023Updated 2 years ago
Alternatives and similar repositories for GEM3D_toolkit
Users that are interested in GEM3D_toolkit are comparing it to the libraries listed below
Sorting:
- VT3D: a versatile Visualization Toolbox for 3D spatial transcriptomics atlas☆14Nov 6, 2024Updated last year
- A comprehensive tool to infer TF-centred, spatial gene regulatory networks for the spatially resolved transcriptomic data.☆19Apr 27, 2025Updated 9 months ago
- ☆12Nov 29, 2022Updated 3 years ago
- Metagenomics Taxonomic Reads Assembly Single-Species☆16May 25, 2023Updated 2 years ago
- A scaffold assembling pipeline for stLFR reads.☆14Mar 15, 2021Updated 4 years ago
- SRY: an effective method for sorting long-read of sex-limited (Y or W) chromosome.☆19Aug 1, 2023Updated 2 years ago
- ☆78Jun 12, 2020Updated 5 years ago
- HAST: Haplotype-Resolved Assembly for Synthetic Long Reads Using A Trio-Binning Strategy☆18Apr 20, 2023Updated 2 years ago
- A pipeline to de novo assemble the stLFR reads using Supernova Assembler☆20Feb 22, 2023Updated 2 years ago
- Pipeline for annotating genomes using long read transcriptomics data with pinfish☆28Dec 8, 2020Updated 5 years ago
- An R package to visualize bigwigs.☆32Jul 5, 2022Updated 3 years ago
- Alignment of spatial genomics data using deep Gaussian processes☆31Dec 14, 2022Updated 3 years ago
- Python binding for KCP☆28Mar 27, 2021Updated 4 years ago
- Bead-based single-cell atac processing☆33Nov 13, 2021Updated 4 years ago
- Ultra-fast 5' and 3' demultiplexer☆29Apr 23, 2024Updated last year
- LDBlockShow: a fast and convenient tool for visualizing linkage disequilibrium and haplotype blocks based on VCF files☆36Jul 5, 2025Updated 7 months ago
- ☆13May 27, 2025Updated 8 months ago
- rnalib: a python-based transcriptomics library☆11Jan 23, 2026Updated 3 weeks ago
- SOAPdenovo-Trans, a de novo transcriptome assembler designed specifically for RNA-Seq. We evaluated its performance on transcriptome data…☆36Dec 27, 2023Updated 2 years ago
- A repository for generating strobemers and evalaution☆79Apr 16, 2024Updated last year
- Detecting recombination of viral lineages☆11Dec 23, 2025Updated last month
- An R interface to the omixer-rpm for turning metagenomic functional profiles into pathway/module profiles☆12Dec 16, 2022Updated 3 years ago
- R functions underlying ExpressAnalyst☆13Updated this week
- your friendly pangenome graph genotyper☆10Feb 6, 2023Updated 3 years ago
- Coarse-grained simulations of biomolecular complexes☆13Aug 2, 2023Updated 2 years ago
- ☆12Apr 29, 2024Updated last year
- 在R语言中使用ChatGPT（中国大陆版）☆12Mar 17, 2023Updated 2 years ago
- Brick breaker clone in C++ from the Planet Chili Beginner C++ tutorial series.☆11Aug 9, 2024Updated last year
- ☆13Aug 13, 2024Updated last year
- Utilities and distributions for (birth-death) skyline models.☆10Aug 27, 2019Updated 6 years ago
- Run multiple Pipeline5 instances at once☆11Jun 6, 2025Updated 8 months ago
- ☆10Aug 27, 2023Updated 2 years ago
- Model and predict short DNA sequence features with neural networks☆80Jun 16, 2019Updated 6 years ago
- A toolkit of spatial transcriptomic analysis.☆273Nov 28, 2025Updated 2 months ago
- Generate signature matrix from single cell data.☆11Apr 13, 2021Updated 4 years ago
- Improved filter to enable EndNode to import BibTeX☆11Feb 15, 2017Updated 8 years ago
- Package for analyzing RNA crosslinking and proximity ligation data (PARIS and beyond)☆12Mar 7, 2024Updated last year
- The Functional Analysis through Hidden Markov Models Software and Server☆14Nov 6, 2014Updated 11 years ago
- This is an updated mirror of the original PacBio Read Simulator☆39Mar 30, 2018Updated 7 years ago