{"repo":"ucscGenomeBrowser/kent-core","free":true,"listed":false,"github":"https://github.com/ucscGenomeBrowser/kent-core","clone":"git clone https://github.com/ucscGenomeBrowser/kent-core.git","description":"All UCSC Genome Browser source code that is under an open source license, mostly file format converters, command line tools and C libraries. A subset of the \"kent\" repo, updated every three weeks.","language":"C","stars":13,"topics":["genomics","data-visualization","bioinformatics","computational-biology"],"license":"MIT","category":"cli-tools","readme_excerpt":"This is a partial copy of the UCSC Genome Browser source code repository https://github.com/ucscGenomeBrowser/kent/. It includes all files that are under an MIT license or in the public domain. All files can be packaged, redistributed and modified as needed by other projects. The code should build with a simple \"make\". The binaries can then be found under \"bin/\". We tested this on CentOS 8, Ubuntu 20 and OSX. To install the required libraries on Ubuntu 20, run the following command: apt install make gcc g++ libpng-dev uuid-dev libmariadbclient-dev If you run into problems, you can contact genome@soe.ucsc.edu. If you want to file issues or pull-requests, please do that at the original repo, at https://github.com/ucscGenomeBrowser/kent/, not here. Changes to that repo will get merged into this repository automatically with the next release (see kent/build/kent-core/). You can find short descriptions for most command line tools here: http://hgdownload.cse.ucsc.edu/admin/exe/linux.x86 64/FOOTER.txt Here are a few selected tools that are useful when building track and assembly hubs: bedToBigBed - create a bigBed file for rectangle-shaped annotations (genes, enhancers, promoters, etc) Tool Description --- --- bedToBigBed create a bigBed file for rectangle-shaped annotations (genes, enhancers, promoters, etc) bigBedToBed the inverse of bedToBigBed bigBedInfo Show information about a bigBed file. Can extract .autoSql field definitions wigToBigWig create a bigWig file for signal (barc","default_branch":null,"files":null,"tree":[],"storefront":"/r/ucscGenomeBrowser","claimed":false,"request_supported":{"post":"https://gitbuyer.com/r/ucscGenomeBrowser/kent-core/request-supported","requests":0},"note":"indexed from public GitHub; nothing is for sale on this page. Clone it from GitHub. Paid listings live at /search."}