{"payload":{"pageCount":2,"repositories":[{"type":"Public","name":"cuttlefish","owner":"COMBINE-lab","isFork":false,"description":"Building the compacted de Bruijn graph efficiently from references or reads.","topicNames":[],"topicsNotShown":0,"primaryLanguage":{"name":"C++","color":"#f34b7d"},"pullRequestCount":1,"issueCount":11,"starsCount":73,"forksCount":6,"license":"BSD 3-Clause \"New\" or \"Revised\" License","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-05-03T23:10:20.263Z"}},{"type":"Public","name":"salmon","owner":"COMBINE-lab","isFork":false,"description":"🐟 🍣 🍱 Highly-accurate &amp; wicked fast transcript-level quantification from RNA-seq reads using selective alignment","topicNames":["bioinformatics","rna-seq","gene-expression","rnaseq","scrna-seq","quantification","single-cell","sailfish","10x","single-cell-rna-seq"],"topicsNotShown":6,"primaryLanguage":{"name":"C++","color":"#f34b7d"},"pullRequestCount":1,"issueCount":326,"starsCount":732,"forksCount":157,"license":"GNU General Public License v3.0","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2024-03-15T20:02:53.633Z"}},{"type":"Public","name":"pbbsbench","owner":"COMBINE-lab","isFork":true,"description":"New version of pbbs benchmarks","topicNames":[],"topicsNotShown":0,"primaryLanguage":{"name":"C++","color":"#f34b7d"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":29,"license":"MIT License","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2023-12-01T01:40:32.519Z"}},{"type":"Public","name":"parallel-hashmap","owner":"COMBINE-lab","isFork":true,"description":"A family of header-only, very fast and memory-friendly hashmap and btree containers.","topicNames":[],"topicsNotShown":0,"primaryLanguage":{"name":"C++","color":"#f34b7d"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":223,"license":"Apache License 2.0","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2023-09-21T02:55:04.966Z"}},{"type":"Public","name":"kseqpp","owner":"COMBINE-lab","isFork":true,"description":"Fast FASTA/Q parser and writer (C++ re-implementation of kseq library)","topicNames":[],"topicsNotShown":0,"primaryLanguage":{"name":"C++","color":"#f34b7d"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":7,"license":"MIT License","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2023-05-26T16:20:27.772Z"}},{"type":"Public","name":"minnow","owner":"COMBINE-lab","isFork":false,"description":"","topicNames":[],"topicsNotShown":0,"primaryLanguage":{"name":"C++","color":"#f34b7d"},"pullRequestCount":1,"issueCount":11,"starsCount":9,"forksCount":2,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2021-12-01T03:59:33.824Z"}},{"type":"Public","name":"maximum-likelihood-relatedness-estimation","owner":"COMBINE-lab","isFork":true,"description":"","topicNames":[],"topicsNotShown":0,"primaryLanguage":{"name":"C++","color":"#f34b7d"},"pullRequestCount":1,"issueCount":6,"starsCount":22,"forksCount":7,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2021-06-09T08:22:04.119Z"}},{"type":"Public","name":"BBHash","owner":"COMBINE-lab","isFork":true,"description":"Bloom-filter based minimal perfect hash function library","topicNames":[],"topicsNotShown":0,"primaryLanguage":{"name":"C++","color":"#f34b7d"},"pullRequestCount":0,"issueCount":0,"starsCount":1,"forksCount":27,"license":"MIT License","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2021-01-21T15:38:17.126Z"}},{"type":"Public","name":"radicl-cpp","owner":"COMBINE-lab","isFork":false,"description":"Internal library for basic reading and writing of .rad files in C++14","topicNames":[],"topicsNotShown":0,"primaryLanguage":{"name":"C++","color":"#f34b7d"},"pullRequestCount":0,"issueCount":0,"starsCount":1,"forksCount":0,"license":"BSD 3-Clause \"New\" or \"Revised\" License","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2020-07-16T05:09:50.310Z"}},{"type":"Public","name":"libgff","owner":"COMBINE-lab","isFork":false,"description":"","topicNames":[],"topicsNotShown":0,"primaryLanguage":{"name":"C++","color":"#f34b7d"},"pullRequestCount":0,"issueCount":0,"starsCount":2,"forksCount":0,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2020-07-02T16:59:43.044Z"}},{"type":"Public","name":"SalmonTools","owner":"COMBINE-lab","isFork":false,"description":"Useful tools for working with Salmon output","topicNames":[],"topicsNotShown":0,"primaryLanguage":{"name":"C++","color":"#f34b7d"},"pullRequestCount":0,"issueCount":8,"starsCount":36,"forksCount":19,"license":"BSD 3-Clause \"New\" or \"Revised\" License","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2020-06-24T14:51:44.036Z"}},{"type":"Public","name":"strong_type","owner":"COMBINE-lab","isFork":true,"description":"An experimental C++ strong typedef-ish thingie","topicNames":[],"topicsNotShown":0,"primaryLanguage":{"name":"C++","color":"#f34b7d"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":30,"license":"The Unlicense","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2020-06-15T19:54:59.985Z"}},{"type":"Public","name":"RapMap","owner":"COMBINE-lab","isFork":false,"description":"Rapid sensitive and accurate read mapping via quasi-mapping","topicNames":[],"topicsNotShown":0,"primaryLanguage":{"name":"C++","color":"#f34b7d"},"pullRequestCount":1,"issueCount":12,"starsCount":87,"forksCount":23,"license":"GNU General Public License v3.0","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2020-06-05T07:13:10.106Z"}},{"type":"Public","name":"compact_vector","owner":"COMBINE-lab","isFork":true,"description":"Bit packed vector of integral values","topicNames":[],"topicsNotShown":0,"primaryLanguage":{"name":"C++","color":"#f34b7d"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":8,"license":"MIT License","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2019-03-21T19:31:47.350Z"}},{"type":"Public","name":"quark","owner":"COMBINE-lab","isFork":false,"description":"semi-reference-based short read compression","topicNames":[],"topicsNotShown":0,"primaryLanguage":{"name":"C++","color":"#f34b7d"},"pullRequestCount":0,"issueCount":1,"starsCount":11,"forksCount":5,"license":"GNU General Public License v3.0","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2019-03-05T22:07:22.168Z"}},{"type":"Public","name":"shoal","owner":"COMBINE-lab","isFork":false,"description":"Improved multi-sample transcript abundance estimates using adaptive priors","topicNames":[],"topicsNotShown":0,"primaryLanguage":{"name":"C++","color":"#f34b7d"},"pullRequestCount":0,"issueCount":1,"starsCount":20,"forksCount":3,"license":"BSD 2-Clause \"Simplified\" License","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2018-10-29T00:52:48.999Z"}},{"type":"Public","name":"rainbowfish","owner":"COMBINE-lab","isFork":false,"description":"A succinct colored dBG representation","topicNames":[],"topicsNotShown":0,"primaryLanguage":{"name":"C++","color":"#f34b7d"},"pullRequestCount":0,"issueCount":3,"starsCount":12,"forksCount":0,"license":"BSD 3-Clause \"New\" or \"Revised\" License","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2018-09-11T05:56:12.550Z"}},{"type":"Public","name":"combinelib","owner":"COMBINE-lab","isFork":false,"description":"Assortment of random, potentially-useful utility functions and classes.","topicNames":[],"topicsNotShown":0,"primaryLanguage":{"name":"C++","color":"#f34b7d"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":0,"license":"BSD 3-Clause \"New\" or \"Revised\" License","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2018-08-02T15:12:34.436Z"}},{"type":"Public","name":"SeqLib","owner":"COMBINE-lab","isFork":true,"description":"C++ htslib/bwa-mem/fermi interface for interrogating sequence data","topicNames":[],"topicsNotShown":0,"primaryLanguage":{"name":"C++","color":"#f34b7d"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":36,"license":"Other","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2018-07-13T14:15:36.829Z"}},{"type":"Public","name":"CSE549-txpCoverage","owner":"COMBINE-lab","isFork":false,"description":"","topicNames":[],"topicsNotShown":0,"primaryLanguage":{"name":"C++","color":"#f34b7d"},"pullRequestCount":0,"issueCount":2,"starsCount":1,"forksCount":1,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2018-02-05T19:28:10.131Z"}},{"type":"Public","name":"spdlog","owner":"COMBINE-lab","isFork":true,"description":"Super fast C++ logging library.","topicNames":[],"topicsNotShown":0,"primaryLanguage":{"name":"C++","color":"#f34b7d"},"pullRequestCount":1,"issueCount":0,"starsCount":2,"forksCount":4276,"license":"MIT License","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2017-12-20T18:47:15.699Z"}},{"type":"Public","name":"matryoshka","owner":"COMBINE-lab","isFork":false,"description":"Methods for the automated discovery of hierarchically-structured chromatin domains","topicNames":[],"topicsNotShown":0,"primaryLanguage":{"name":"C++","color":"#f34b7d"},"pullRequestCount":0,"issueCount":1,"starsCount":5,"forksCount":1,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2017-08-18T23:34:00.843Z"}},{"type":"Public","name":"cosmo","owner":"COMBINE-lab","isFork":true,"description":"Cosmo is a fast, low-memory DNA assembler using a Succinct (variable order) de Bruijn Graph.","topicNames":[],"topicsNotShown":0,"primaryLanguage":{"name":"C++","color":"#f34b7d"},"pullRequestCount":1,"issueCount":0,"starsCount":0,"forksCount":17,"license":"GNU General Public License v3.0","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2017-05-19T14:45:26.672Z"}},{"type":"Public","name":"Sux","owner":"COMBINE-lab","isFork":true,"description":"Implementing Succinct Data Structures from Sebastiano Vigna(<a href=\"http://sux.di.unimi.it\" rel=\"nofollow\">http://sux.di.unimi.it</a>)","topicNames":[],"topicsNotShown":0,"primaryLanguage":{"name":"C++","color":"#f34b7d"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":5,"license":"GNU Lesser General Public License v3.0","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2017-04-10T02:08:34.206Z"}},{"type":"Public","name":"easyhdf5","owner":"COMBINE-lab","isFork":false,"description":"","topicNames":[],"topicsNotShown":0,"primaryLanguage":{"name":"C++","color":"#f34b7d"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":0,"license":"BSD 3-Clause \"New\" or \"Revised\" License","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2015-12-16T23:19:20.693Z"}},{"type":"Public","name":"SkipPatch","owner":"COMBINE-lab","isFork":true,"description":"dynamic-updateable-index ","topicNames":[],"topicsNotShown":0,"primaryLanguage":{"name":"C++","color":"#f34b7d"},"pullRequestCount":0,"issueCount":0,"starsCount":11,"forksCount":2,"license":null,"participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2015-11-10T07:42:36.380Z"}},{"type":"Public","name":"sparsehash","owner":"COMBINE-lab","isFork":true,"description":"Automatically exported from code.google.com/p/sparsehash","topicNames":[],"topicsNotShown":0,"primaryLanguage":{"name":"C++","color":"#f34b7d"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":2,"license":"BSD 3-Clause \"New\" or \"Revised\" License","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2015-09-25T21:56:02.687Z"}},{"type":"Public","name":"Jellyfish","owner":"COMBINE-lab","isFork":true,"description":"A fast multi-threaded k-mer counter","topicNames":[],"topicsNotShown":0,"primaryLanguage":{"name":"C++","color":"#f34b7d"},"pullRequestCount":0,"issueCount":0,"starsCount":1,"forksCount":138,"license":"GNU General Public License v3.0","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2015-07-27T15:38:53.586Z"}},{"type":"Public","name":"matryoshka_work","owner":"COMBINE-lab","isFork":false,"description":"","topicNames":[],"topicsNotShown":0,"primaryLanguage":{"name":"C++","color":"#f34b7d"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":0,"license":"GNU General Public License v3.0","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2015-06-03T15:56:49.617Z"}},{"type":"Public","name":"PrefixCompression","owner":"COMBINE-lab","isFork":false,"description":"","topicNames":[],"topicsNotShown":0,"primaryLanguage":{"name":"C++","color":"#f34b7d"},"pullRequestCount":0,"issueCount":0,"starsCount":0,"forksCount":0,"license":"MIT License","participation":null,"lastUpdated":{"hasBeenPushedTo":true,"timestamp":"2015-02-13T03:10:24.718Z"}}],"repositoryCount":31,"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":"mirror","text":"Mirrors"},{"id":"template","text":"Templates"}],"compactMode":false},"title":"Repositories"}