{"payload":{"pageCount":1,"repositories":[{"type":"Public","name":"SpatialNF","owner":"aertslab","isFork":false,"description":"Spatial transcriptomics NextFlow pipelines","allTopics":[],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":0,"issueCount":1,"starsCount":2,"forksCount":0,"license":"GNU General Public License v3.0","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-05-16T14:27:07.471Z"}},{"type":"Public","name":"scatac_fragment_tools","owner":"aertslab","isFork":false,"description":"Tools for working with scATAC-seq fragment files","allTopics":["fragments","fragment","single-cell","scatac-seq"],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":0,"issueCount":0,"starsCount":2,"forksCount":0,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-04-24T12:24:10.890Z"}},{"type":"Public","name":"pycistarget","owner":"aertslab","isFork":false,"description":"pycistarget is a python module to perform motif enrichment analysis in sets of regions with different tools and identify high confidence TF cistromes.","allTopics":[],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":0,"issueCount":12,"starsCount":11,"forksCount":4,"license":"Other","participation":[0,0,0,0,0,0,4,5,0,6,0,1,0,0,1,0,0,0,0,0,0,0,8,0,0,0,1,0,0,0,0,0,0,0,7,0,0,0,0,0,0,0,0,1,0,0,0,0,0,0,0,0],"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-04-23T13:11:07.175Z"}},{"type":"Public","name":"pySCENIC","owner":"aertslab","isFork":false,"description":"pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which enables biologists to infer transcription factors, gene regulatory networks and cell types from single-cell RNA-seq data.","allTopics":["transcription-factors","transcriptomics","single-cell","gene-regulatory-network"],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":3,"issueCount":167,"starsCount":393,"forksCount":176,"license":"GNU General Public License v3.0","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-04-08T07:34:38.859Z"}},{"type":"Public","name":"ctxcore","owner":"aertslab","isFork":false,"description":"Core functions for pycisTarget and the SCENIC tool suite","allTopics":[],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":1,"issueCount":2,"starsCount":3,"forksCount":6,"license":"GNU General Public License v3.0","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-03-29T14:10:20.221Z"}},{"type":"Public","name":"LoomXpy","owner":"aertslab","isFork":false,"description":"Python package (compatible with SCope) to create .loom files and extend them with other data e.g.: SCENIC regulons","allTopics":[],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":0,"issueCount":1,"starsCount":5,"forksCount":3,"license":"MIT License","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2023-06-13T10:00:11.934Z"}},{"type":"Public","name":"create_cisTarget_databases","owner":"aertslab","isFork":false,"description":"Create cisTarget databases","allTopics":[],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":0,"issueCount":28,"starsCount":35,"forksCount":8,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2023-04-18T15:18:07.495Z"}},{"type":"Public","name":"SCope","owner":"aertslab","isFork":false,"description":"Fast visualization tool for large-scale and high dimensional single-cell data","allTopics":["aws","cloud","reactjs","grpc","gene-expression","single-cell","loom","large-scale-data-visualization","gene-regulatory-network"],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":4,"issueCount":95,"starsCount":69,"forksCount":14,"license":"GNU General Public License v3.0","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2023-03-05T21:47:00.384Z"}},{"type":"Public","name":"SCENICprotocol","owner":"aertslab","isFork":false,"description":"A scalable SCENIC workflow for single-cell gene regulatory network analysis","allTopics":[],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":14,"issueCount":28,"starsCount":130,"forksCount":62,"license":"GNU General Public License v3.0","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2022-12-08T07:04:22.674Z"}},{"type":"Public","name":"biopython","owner":"aertslab","isFork":true,"description":"Official git repository for Biopython (converted from CVS)","allTopics":[],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":1727,"license":"Other","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-04-08T14:09:54.788Z"}},{"type":"Public","name":"regulatory_regions_delineation","owner":"aertslab","isFork":false,"description":"Create regulatory regions delineation","allTopics":[],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":0,"issueCount":0,"starsCount":1,"forksCount":0,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2022-05-25T12:03:17.705Z"}},{"type":"Public","name":"NGSCheckMate","owner":"aertslab","isFork":true,"description":"Software program for checking sample matching for NGS data","allTopics":[],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":47,"license":"MIT License","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2020-05-28T09:17:53.312Z"}},{"type":"Public","name":"webhdf5","owner":"aertslab","isFork":false,"description":"HDF5 library in WASM","allTopics":[],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":0,"issueCount":1,"starsCount":2,"forksCount":2,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2020-01-17T09:09:04.717Z"}},{"type":"Public","name":"loompy","owner":"aertslab","isFork":true,"description":"Python implementation of the Loom file format - http://loompy.org","allTopics":[],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":36,"license":"BSD 2-Clause \"Simplified\" License","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2019-12-18T16:57:38.956Z"}},{"type":"Public","name":"scanpy","owner":"aertslab","isFork":true,"description":"Single-Cell Analysis in Python. Scales to >1M cells.","allTopics":[],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":581,"license":"BSD 3-Clause \"New\" or \"Revised\" License","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2019-11-06T10:07:04.184Z"}},{"type":"Public","name":"mucistarget","owner":"aertslab","isFork":false,"description":"Predict cis-regulatory mutations in gene regulatory networks","allTopics":[],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":0,"issueCount":0,"starsCount":2,"forksCount":0,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2019-09-16T12:00:57.129Z"}},{"type":"Public","name":"primescore","owner":"aertslab","isFork":false,"description":"Calculation of regulatory impact score of a mutation.","allTopics":[],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":0,"issueCount":0,"starsCount":3,"forksCount":2,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2019-03-11T14:29:51.056Z"}},{"type":"Public","name":"SCopeLoomPy","owner":"aertslab","isFork":false,"description":"A Python notebook to create .loom files and extend them with other data e.g.: SCENIC regulons, Seurat clusters and markers, compatible with SCope","allTopics":[],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":0,"issueCount":4,"starsCount":2,"forksCount":0,"license":"MIT License","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2019-01-08T10:03:00.835Z"}},{"type":"Public","name":"ATAC-seq-analysis","owner":"aertslab","isFork":false,"description":"Some scripts for ATAC-seq data analysis","allTopics":[],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":0,"issueCount":0,"starsCount":2,"forksCount":3,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2016-01-21T15:22:53.438Z"}},{"type":"Public","name":"MACS","owner":"aertslab","isFork":true,"description":"MACS -- Model-based Analysis of ChIP-Seq","allTopics":[],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":272,"license":"Other","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2015-03-12T15:37:31.115Z"}},{"type":"Public","name":"ngsutils","owner":"aertslab","isFork":true,"description":"Tools for next-generation sequencing analysis","allTopics":[],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":36,"license":"Other","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2015-03-12T09:08:55.859Z"}}],"repositoryCount":21,"userInfo":null,"searchable":true,"definitions":[],"typeFilters":[{"id":"all","text":"All"},{"id":"public","text":"Public"},{"id":"source","text":"Sources"},{"id":"fork","text":"Forks"},{"id":"archived","text":"Archived"},{"id":"template","text":"Templates"}],"compactMode":false},"title":"Repositories"}