{"payload":{"pageCount":1,"repositories":[{"type":"Public","name":"ClinSV","owner":"KCCG","isFork":false,"description":"Robust detection of clinically relevant structural and copy number variation from whole genome sequencing data","topicNames":["structural-variation"],"topicsNotShown":0,"allTopics":["structural-variation"],"primaryLanguage":{"name":"Perl","color":"#0298c3"},"pullRequestCount":0,"issueCount":28,"starsCount":60,"forksCount":7,"license":"Other","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-04-24T08:35:21.043Z"}},{"type":"Public","name":"mity","owner":"KCCG","isFork":true,"description":"mity: A highly sensitive mitochondrial variant analysis pipeline for whole genome sequencing data","topicNames":["bioinformatics","genomics","whole-genome-sequencing","precision-medicine","mitochondria"],"topicsNotShown":0,"allTopics":["bioinformatics","genomics","whole-genome-sequencing","precision-medicine","mitochondria"],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":1,"issueCount":12,"starsCount":34,"forksCount":4,"license":"MIT License","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-04-17T13:42:23.503Z"}},{"type":"Public","name":"phenomics-devops","owner":"KCCG","isFork":false,"description":"Phenomics code and Jenkins dev-ops setup","topicNames":[],"topicsNotShown":0,"allTopics":[],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":4,"issueCount":0,"starsCount":1,"forksCount":0,"license":"GNU General Public License v3.0","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2022-12-08T01:00:15.705Z"}},{"type":"Public","name":"rageseq","owner":"KCCG","isFork":false,"description":"RAGE-seq scripts","topicNames":[],"topicsNotShown":0,"allTopics":[],"primaryLanguage":{"name":"Perl","color":"#0298c3"},"pullRequestCount":0,"issueCount":3,"starsCount":17,"forksCount":3,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2021-08-30T03:31:12.355Z"}},{"type":"Public","name":"genomics-r-intro","owner":"KCCG","isFork":true,"description":"Intro to R and RStudio for Genomics","topicNames":[],"topicsNotShown":0,"allTopics":[],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":89,"license":"Other","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2021-04-23T04:49:21.435Z"}},{"type":"Public","name":"wrangling-genomics","owner":"KCCG","isFork":true,"description":"","topicNames":[],"topicsNotShown":0,"allTopics":[],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":151,"license":"Other","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2021-03-19T04:21:50.077Z"}},{"type":"Public","name":"shell-genomics","owner":"KCCG","isFork":true,"description":"","topicNames":[],"topicsNotShown":0,"allTopics":[],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":189,"license":"Other","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2021-03-12T05:42:04.678Z"}},{"type":"Public","name":"fast5_fetcher","owner":"KCCG","isFork":true,"description":"A tool for fetching nanopore fast5 files after filtering via demultiplexing, alignment, or other, to improve downstream processing efficiency","topicNames":[],"topicsNotShown":0,"allTopics":[],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":1,"issueCount":0,"starsCount":1,"forksCount":4,"license":"MIT License","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2019-02-13T12:45:33.211Z"}},{"type":"Public","name":"phenomics-subscription-worker","owner":"KCCG","isFork":false,"description":"A java dcokerized runnable scheduled to perform subscribed searches and send notifications","topicNames":[],"topicsNotShown":0,"allTopics":[],"primaryLanguage":{"name":"Java","color":"#b07219"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":0,"license":"GNU General Public License v3.0","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2018-10-05T03:40:22.872Z"}},{"type":"Public","name":"phenomics-notification","owner":"KCCG","isFork":false,"description":"","topicNames":[],"topicsNotShown":0,"allTopics":[],"primaryLanguage":{"name":"Java","color":"#b07219"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":0,"license":"GNU General Public License v3.0","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2018-10-05T03:38:27.726Z"}},{"type":"Public","name":"phenomics-pubmed-ingestion","owner":"KCCG","isFork":false,"description":"Amazon Lambda function to fetch, clean and dispatch latest pubmed articles for annotation.","topicNames":[],"topicsNotShown":0,"allTopics":[],"primaryLanguage":{"name":"Java","color":"#b07219"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":0,"license":"GNU General Public License v3.0","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2018-10-05T03:36:26.361Z"}},{"type":"Public","name":"phenomics-affinity","owner":"KCCG","isFork":false,"description":"Affinity is a service equipped with Lucene and Luwak for active ontology search hits","topicNames":[],"topicsNotShown":0,"allTopics":[],"primaryLanguage":{"name":"Java","color":"#b07219"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":0,"license":"GNU General Public License v3.0","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2018-10-05T03:35:39.546Z"}},{"type":"Public","name":"phenomics-hippo","owner":"KCCG","isFork":false,"description":"The Monarch HIPPO: Deriving insight from the medical literature by fuzzy semantic searches over diseases and phenotypes.","topicNames":[],"topicsNotShown":0,"allTopics":[],"primaryLanguage":{"name":"JavaScript","color":"#f1e05a"},"pullRequestCount":0,"issueCount":0,"starsCount":1,"forksCount":0,"license":"GNU General Public License v3.0","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2018-10-05T03:34:21.394Z"}},{"type":"Public","name":"phenomics-annotation-pipeline","owner":"KCCG","isFork":false,"description":"Phenomics annotation and search suite","topicNames":[],"topicsNotShown":0,"allTopics":[],"primaryLanguage":{"name":"Java","color":"#b07219"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":1,"license":"GNU General Public License v3.0","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2018-10-05T03:30:12.114Z"}},{"type":"Public","name":"vcfscope-asset","owner":"KCCG","isFork":false,"description":"dx Asset bundle, supporting VCFscope","topicNames":[],"topicsNotShown":0,"allTopics":[],"primaryLanguage":{"name":"Makefile","color":"#427819"},"pullRequestCount":1,"issueCount":0,"starsCount":0,"forksCount":2,"license":"GNU General Public License v3.0","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2018-09-20T03:56:37.387Z"}},{"type":"Public","name":"introme","owner":"KCCG","isFork":false,"description":"","topicNames":["bioinformatics"],"topicsNotShown":0,"allTopics":["bioinformatics"],"primaryLanguage":{"name":"Shell","color":"#89e051"},"pullRequestCount":0,"issueCount":0,"starsCount":6,"forksCount":0,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2018-08-10T02:07:54.274Z"}},{"type":"Public","name":"seave","owner":"KCCG","isFork":false,"description":"Seave is a web platform that enables genetic variants to be easily filtered and annotated with in silico pathogenicity prediction scores and annotations from popular disease databases. Seave stores genomic variation of all types and sizes, and allows filtering for specific inheritance patterns, quality values, allele frequencies and gene lists. …","topicNames":["html","php","bioinformatics","research","web","genomics","genetics","sequencing","clinical","gemini"],"topicsNotShown":2,"allTopics":["html","php","bioinformatics","research","web","genomics","genetics","sequencing","clinical","gemini","wgs","bedtools"],"primaryLanguage":{"name":"HTML","color":"#e34c26"},"pullRequestCount":0,"issueCount":0,"starsCount":15,"forksCount":3,"license":"Other","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2018-08-09T02:48:55.660Z"}},{"type":"Public","name":"vcfscope-measure","owner":"KCCG","isFork":false,"description":"Measure the performance of a genomic analysis pipeline","topicNames":[],"topicsNotShown":0,"allTopics":[],"primaryLanguage":{"name":"Perl","color":"#0298c3"},"pullRequestCount":1,"issueCount":0,"starsCount":2,"forksCount":2,"license":"GNU General Public License v3.0","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2018-08-07T05:26:41.901Z"}},{"type":"Public","name":"POREquality","owner":"KCCG","isFork":true,"description":"This is an early version of POREquality, an R Markdown document designed to be ran as part of a Nanopore local basecalling pipeline.","topicNames":[],"topicsNotShown":0,"allTopics":[],"primaryLanguage":null,"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":7,"license":"MIT License","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2018-07-16T10:23:31.516Z"}},{"type":"Public","name":"seave-documentation","owner":"KCCG","isFork":false,"description":"Documentation for how to use and administrate a Seave installation.","topicNames":[],"topicsNotShown":0,"allTopics":[],"primaryLanguage":{"name":"TeX","color":"#3D6117"},"pullRequestCount":0,"issueCount":0,"starsCount":1,"forksCount":0,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2018-05-07T07:24:31.216Z"}},{"type":"Public","name":"seave-databases-annotations","owner":"KCCG","isFork":false,"description":"SQL files required to set up the Seave database schema and scripts to import data from annotation sources into the Seave MySQL annotation databases.","topicNames":[],"topicsNotShown":0,"allTopics":[],"primaryLanguage":{"name":"Perl","color":"#0298c3"},"pullRequestCount":0,"issueCount":0,"starsCount":2,"forksCount":2,"license":"Other","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2018-03-23T03:54:25.879Z"}},{"type":"Public","name":"refynr","owner":"KCCG","isFork":false,"description":"KCCG's cloud-based, genome analysis pipeline","topicNames":[],"topicsNotShown":0,"allTopics":[],"primaryLanguage":null,"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":1,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2017-12-01T06:21:36.621Z"}},{"type":"Public","name":"kccg-dx-igvserver","owner":"KCCG","isFork":false,"description":"IGV server for DNAnexus data","topicNames":[],"topicsNotShown":0,"allTopics":[],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":0,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2017-09-26T14:34:48.467Z"}},{"type":"Public","name":"vcfscope-reporter","owner":"KCCG","isFork":false,"description":"VCFscope report generation app.","topicNames":[],"topicsNotShown":0,"allTopics":[],"primaryLanguage":{"name":"R","color":"#198CE7"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":1,"license":"GNU General Public License v3.0","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2017-02-28T03:18:41.569Z"}},{"type":"Public","name":"TxDb.Hsapiens.UCSC.hg19.ccdsGene","owner":"KCCG","isFork":false,"description":"Annotation database generated from UCSC, using CCDS (Consensus CDS IDs)","topicNames":[],"topicsNotShown":0,"allTopics":[],"primaryLanguage":{"name":"R","color":"#198CE7"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":0,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2017-01-31T10:41:58.439Z"}},{"type":"Public","name":"homebrew-genomics","owner":"KCCG","isFork":false,"description":"Genomics formulae for the Homebrew package manager, brew.sh","topicNames":[],"topicsNotShown":0,"allTopics":[],"primaryLanguage":{"name":"Ruby","color":"#701516"},"pullRequestCount":0,"issueCount":0,"starsCount":1,"forksCount":0,"license":"Other","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2017-01-19T00:57:01.975Z"}},{"type":"Public","name":"cloudbiolinux","owner":"KCCG","isFork":true,"description":"CloudBioLinux: configure virtual (or real) machines with tools for biological analyses","topicNames":[],"topicsNotShown":0,"allTopics":[],"primaryLanguage":{"name":"Python","color":"#3572A5"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":160,"license":"MIT License","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2014-07-23T16:20:09.185Z"}}],"repositoryCount":27,"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"}