ketringjoni / SuPreMo
Pipeline for generating reference and perturbed sequences for input into predictive models.
☆11Updated 6 months ago
Alternatives and similar repositories for SuPreMo
Users that are interested in SuPreMo are comparing it to the libraries listed below
Sorting:
- ☆38Updated 8 months ago
- a toolset for mining multi-dimensional features of the translatome with ribosome profiling data☆18Updated 4 months ago
- Bioinformatic tool for Splice site Strength Estimation using RNA-seq☆16Updated last week
- off-targeting assessment of Cas9 gRNAs☆13Updated 4 years ago
- ☆17Updated 6 months ago
- Saluki, a method to predict mRNA half-lives from sequence☆24Updated 2 years ago
- Single-cell Hi-C data analysis toolbox☆27Updated 3 years ago
- https://www.biorxiv.org/content/10.1101/2023.07.03.547592v2☆29Updated 3 months ago
- ExplaiNN: interpretable and transparent neural networks for genomics☆48Updated last month
- Dataloader for applying sequence models to personalized genomics☆25Updated this week
- snakemake pipeline for Hi-C post-processing☆22Updated 10 months ago
- Cooler demo using a Jupyter notebook Binder☆17Updated 4 years ago
- Python implementation of HiCRep stratum-adjusted correlation coefficient of Hi-C data with Cooler sparse contact matrix support☆38Updated last year
- Chromatin interaction aware gene regulatory modeling with graph attention networks☆26Updated 2 years ago
- Identifying genome-wide translated open reading frames using ribosome profiling☆23Updated last year
- ☆15Updated 3 years ago
- Comparison of Hi-C Experiments using Structural Similarity.☆27Updated last year
- DeepLoop robustly identifies enhancer-promoter interactions from low-depth and single-cell Hi-C data☆32Updated last month
- Feature-rich Python implementation of the tximport package for gene count estimation.☆36Updated last month
- A simple tool to perform the calculation and visualization of the average chromatin A/B compartment.☆14Updated 2 years ago
- Concurrent identification of m6A and m5C modifications in individual molecules from nanopore sequencing☆39Updated 9 months ago
- Modelling insertion efficiency for Prime Insertion Experiments☆13Updated last year
- Clustering TF motif models from multiple species (mostly focused on Drosophila and human) by similarity to remove redundancy☆26Updated 2 years ago
- LncADeep is an ab initio lncRNA identification and functional annotation tool based on deep learning☆27Updated 6 years ago
- ☆23Updated 8 months ago
- code to run EPInformer for gene expression prediction and gene-enhancer links prioritization☆42Updated 5 months ago
- First version of PORE-cupine. Detecting SHAPE modification using direct RNA sequencing☆14Updated last year
- Deep learning model built to quantitatively predict the activities of developmental and housekeeping enhancers from DNA sequence in Droso…☆63Updated 2 years ago
- Code for reproducing the Sei manuscript results☆16Updated 3 years ago
- Comprehensive and scalable differential splicing analyses☆17Updated 2 months ago