{"payload":{"pageCount":1,"repositories":[{"type":"Public","name":"clique","owner":"mckennalab","isFork":false,"description":"Read alignment and collapsing for lineage data","allTopics":[],"primaryLanguage":{"name":"Rust","color":"#dea584"},"pullRequestCount":0,"issueCount":0,"starsCount":1,"forksCount":0,"license":"GNU General Public License v3.0","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-09-05T23:34:59.636Z"}},{"type":"Public","name":"FlashFry","owner":"mckennalab","isFork":false,"description":"FlashFry: The rapid CRISPR target site characterization tool","allTopics":["crispr","crispr-cas9","genome-editing","bioinformatics"],"primaryLanguage":{"name":"Scala","color":"#c22d40"},"pullRequestCount":0,"issueCount":9,"starsCount":63,"forksCount":10,"license":"Other","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-06-12T16:10:35.850Z"}},{"type":"Public","name":"gene_146","owner":"mckennalab","isFork":false,"description":"Code and course material for Gene/QBS 146: Foundations of Bioinformatics I","allTopics":[],"primaryLanguage":{"name":"Jupyter Notebook","color":"#DA5B0B"},"pullRequestCount":0,"issueCount":0,"starsCount":3,"forksCount":2,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-05-07T21:01:48.069Z"}},{"type":"Public","name":"butcher","owner":"mckennalab","isFork":false,"description":"A opinionated read trimmer","allTopics":[],"primaryLanguage":{"name":"Rust","color":"#dea584"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":0,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2023-10-13T18:56:10.018Z"}},{"type":"Public","name":"Circuitseq","owner":"mckennalab","isFork":false,"description":"Nanopore Plasmid Sequencing ","allTopics":[],"primaryLanguage":{"name":"JavaScript","color":"#f1e05a"},"pullRequestCount":0,"issueCount":6,"starsCount":30,"forksCount":1,"license":"Other","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2023-10-10T13:27:42.207Z"}},{"type":"Public","name":"PhysiCell-Studio-2.26.122","owner":"mckennalab","isFork":false,"description":"","allTopics":[],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":0,"license":"BSD 3-Clause \"New\" or \"Revised\" License","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2023-08-08T14:49:06.140Z"}},{"type":"Public","name":"counterfeiter","owner":"mckennalab","isFork":false,"description":"simulated lineage trees with cell patterning options","allTopics":[],"primaryLanguage":{"name":"Rust","color":"#dea584"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":0,"license":"GNU General Public License v3.0","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2023-07-13T13:16:20.398Z"}},{"type":"Public","name":"TreeUtils","owner":"mckennalab","isFork":false,"description":"A simple Scala tool to handle running the PHILIP MIX parsimony program and generating JSON output trees","allTopics":[],"primaryLanguage":{"name":"Scala","color":"#c22d40"},"pullRequestCount":0,"issueCount":0,"starsCount":5,"forksCount":1,"license":"GNU General Public License v3.0","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2023-05-08T18:16:34.727Z"}},{"type":"Public","name":"NextLineage","owner":"mckennalab","isFork":false,"description":"Lineage recorder processing using NextFlow","allTopics":[],"primaryLanguage":{"name":"Nextflow","color":"#3ac486"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":0,"license":"GNU General Public License v3.0","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2023-01-27T15:41:28.524Z"}},{"type":"Public","name":"PennGrader","owner":"mckennalab","isFork":true,"description":"A seamless in-line Jupyter Notebook autograder.","allTopics":[],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":9,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2022-12-30T20:16:05.571Z"}},{"type":"Public","name":"DupScoop","owner":"mckennalab","isFork":false,"description":"Remove duplicate segments from small, circular genome assemblies","allTopics":[],"primaryLanguage":{"name":"Rust","color":"#dea584"},"pullRequestCount":0,"issueCount":0,"starsCount":1,"forksCount":0,"license":"GNU General Public License v3.0","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2022-12-01T18:22:27.393Z"}},{"type":"Public","name":"editing_plots","owner":"mckennalab","isFork":false,"description":"split out the editing plots to refactor them","allTopics":[],"primaryLanguage":{"name":"JavaScript","color":"#f1e05a"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":0,"license":"MIT License","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2022-10-26T13:40:49.557Z"}},{"type":"Public","name":"gene111","owner":"mckennalab","isFork":false,"description":"Notebooks and code for Dartmouth's GENE111 class","allTopics":[],"primaryLanguage":{"name":"Jupyter Notebook","color":"#DA5B0B"},"pullRequestCount":0,"issueCount":0,"starsCount":2,"forksCount":7,"license":"GNU General Public License v3.0","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2021-06-13T18:57:38.670Z"}},{"type":"Public","name":"mckennalab.github.io","owner":"mckennalab","isFork":false,"description":"the rendered version of the website","allTopics":[],"primaryLanguage":{"name":"HTML","color":"#e34c26"},"pullRequestCount":0,"issueCount":0,"starsCount":1,"forksCount":0,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2021-05-25T18:12:06.120Z"}},{"type":"Public archive","name":"SingleCellLineage","owner":"mckennalab","isFork":false,"description":"Updated scripts and pipelines for processing GESTALT data at single-cell resolution","allTopics":[],"primaryLanguage":{"name":"Scala","color":"#c22d40"},"pullRequestCount":0,"issueCount":1,"starsCount":19,"forksCount":8,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2021-05-22T03:38:12.889Z"}},{"type":"Public","name":"SAMToFasta","owner":"mckennalab","isFork":false,"description":"Convert a SAM and reference files into a paired FASTA alignment file","allTopics":[],"primaryLanguage":{"name":"Rust","color":"#dea584"},"pullRequestCount":0,"issueCount":3,"starsCount":2,"forksCount":0,"license":"GNU General Public License v3.0","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2020-10-28T04:51:06.980Z"}},{"type":"Public archive","name":"COVID_scheduler","owner":"mckennalab","isFork":false,"description":"auto-schedule people for COVID lab access","allTopics":[],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":0,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2020-07-12T23:42:58.833Z"}},{"type":"Public","name":"hugo_academic_website","owner":"mckennalab","isFork":false,"description":"the templated version of the website","allTopics":[],"primaryLanguage":{"name":"TeX","color":"#3D6117"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":2,"license":"MIT License","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2020-07-01T17:35:56.708Z"}},{"type":"Public archive","name":"SciMaul","owner":"mckennalab","isFork":false,"description":"SCIMaul: A read splitter for single-cell experiments","allTopics":[],"primaryLanguage":{"name":"Scala","color":"#c22d40"},"pullRequestCount":0,"issueCount":0,"starsCount":4,"forksCount":0,"license":"GNU General Public License v3.0","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2019-04-10T21:41:16.427Z"}},{"type":"Public archive","name":"custom_barcodes","owner":"mckennalab","isFork":false,"description":"Generation of custom sequencing barcodes","allTopics":[],"primaryLanguage":{"name":"Scala","color":"#c22d40"},"pullRequestCount":0,"issueCount":0,"starsCount":2,"forksCount":0,"license":"Creative Commons Attribution Share Alike 4.0 International","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2018-11-12T23:30:22.074Z"}},{"type":"Public","name":"SC_GESTALT","owner":"mckennalab","isFork":true,"description":"GESTALT processing pipeline for barcodes captured with single-cell RNA sequencing","allTopics":[],"primaryLanguage":{"name":"Scala","color":"#c22d40"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":6,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2017-12-30T22:53:43.036Z"}}],"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":"mckennalab repositories"}