michael-weinstein / dsNickFury3PlusOrchid
dsNickFury is for comparing a CRISPR target site against all other potential sites in a genome. Orchid is a package I'm developing to go with it for iterative CRISPR analysis over an exome.
☆12Updated 6 years ago
Related projects ⓘ
Alternatives and complementary repositories for dsNickFury3PlusOrchid
- ☆34Updated 6 years ago
- Code for the CRISPOR article, all data and code to create figures and analysis☆41Updated 8 years ago
- Standard set of data-loaders for training and making predictions for DNA sequence-based models.☆77Updated 2 months ago
- Computational biology utility scripts☆19Updated 4 months ago
- DeepTACT: predicting three-dimensional chromatin contacts via bootstrapping deep learning☆19Updated 4 years ago
- software for the analysis and visualization of deep mutational scanning data☆32Updated 2 years ago
- Python module for the easy handling and analysis of DNase-seq data☆37Updated 5 years ago
- MuPeXI: the mutant peptide extractor and informer, a tool for predicting neo-epitopes from tumor sequencing data.☆46Updated 5 years ago
- "Representation Learning of Genomic Sequence Motifs with Convolutional Neural Networks" by Peter K. Koo and Sean R. Eddy☆31Updated 4 years ago
- A python library for creating simulated regulatory DNA sequences☆38Updated last year
- A tool for fast and accurate summarizing of variant calling format (VCF) files☆60Updated last year
- Tool package to perform in-silico CRISPR analysis and assessment☆22Updated 6 months ago
- MHC Class I and Class II neoantigen binding prediction☆26Updated last year
- Simple and efficient access to genomic data for deep learning models.☆43Updated 4 years ago
- Concise: Keras extension for regulatory genomics☆33Updated last year
- Infer selection pressures on features of amino acid CDR3 sequences.☆23Updated 6 months ago
- ☆23Updated 3 years ago
- Python package to plot sequence logos☆29Updated last year
- Tissue-specific variant effect predictions on splicing☆40Updated last year
- IGoR is a C++ software designed to infer V(D)J recombination related processes from sequencing data. Find full documentation at:☆48Updated 2 years ago
- A deep learning approach for predicting high-confidence neoantigens by considering both the presentation possibilities of mutant peptides…☆40Updated last year
- A tool to design highly specific PCR primers for the validation of genomic alterations including structural variants☆45Updated 7 years ago
- Using our experimental screening dataset, we trained machine learning models to predict sgRNA activity.☆11Updated 6 years ago
- Machine learning workflows for analyzing high-throughput protein data☆24Updated 7 years ago
- Code and data used in The Great Repertoire Project☆29Updated 3 years ago
- An Artificial Neural Network-based discriminator for validating clinically significant genomic variants☆35Updated 10 months ago
- A simple pythonic interface to biomart.☆55Updated 4 years ago
- Splicing Neo Antigen Finder (SNAF) is an easy-to-use Python package to identify splicing-derived tumor neoantigens from RNA sequencing da…☆44Updated 3 months ago
- Tool for Motif Deconvolution in large HLA-II ligand datasets without the need of prior alignment.☆11Updated last year
- Downloader for ENCODE☆31Updated 4 years ago