BCFtools is a set of utilities that manipulate variant calls in the Variant Call Format (VCF) and its binary counterpart BCF. All commands work transparently with both VCFs and BCFs, both uncompressed and BGZF-compressed. For tabix, download htslib-1.4 from here. Tabix and bgzip are parts of htslib, and these are required for working with vcftools, bcftools. ADD REPLY • link modified 19 months ago by RamRS ♦ 18k • written 19 months ago by aham • 30.
10x Genomics End User Software License Agreement PLEASE CAREFULLY REVIEW ALL OF THE TERMS SET FORTH IN THIS LICENSE AGREEMENT BEFORE CLICKING “I AGREE”, SIGNING OR OTHERWISE INSTALLING, USING, OR ACCESSING THE 10x GENOMICS SOFTWARE PRODUCT, AS BY DOING SO, YOU (“LICENSEE”) ARE ACKNOWLEDGING THAT YOU HAVE READ AND UNDERSTAND THIS LICENSE AGREEMENT AND ARE AGREEING TO BE BOUND BY ALL OF ITS TERMS. 1.0 General 1.1 This agreement (“Agreement”) relates to the license, installation and/or use by you (the “Licensee”) of the software product(s) of 10x Genomics, Inc. (“10x”), identified herein and/or that accompanies these license terms, including any and all associated modules, documentation, and updates or revisions thereto.
1.2 By agreeing and/or otherwise proceeding with the installation of, use of or other access to the 10x software products, you acknowledge that you have read and understood all of the terms of this Agreement, and that you are agreeing to be bound by all of the terms set forth herein. 10x does not accept, and expressly rejects hereby any conflicting or additional terms presented by Licensee, and such terms shall have no effect, whether or not 10x communicates the rejection again, specifically after receipt of licensee’s terms. The Agreement consists only of these terms and any other terms that 10x issues or expressly accepts in a duly signed writing. Any additional software provided by 10x may be subject to additional and/or different terms and conditions. 2.0 Definitions 2.1 'Product' means each item provided by 10x to Licensee, including any 10x Instrument, Licensed Software and/or 10x Consumable, listed in the applicable written sales quotation issued by 10x ('Quotation') or, in the event a Quotation is not issued, listed in 10x's then-current price list applicable to Buyer's jurisdiction, and identified in Buyer's purchase order. 2.2 '10x Instrument' means a 10x-branded instrument sold by 10x or an authorized distributor and/or reseller.
2.3 '10x Consumables' means 10x microfluidic cartridges and/or associated 10x-branded reagent kits, and labware, or any individual components of the foregoing, intended by 10x for use with 10x Instruments. 2.4 'Licensed Software' means the software (including Loupe™ Software and Loupe™-related components of Other Software) provided by 10x to Buyer and/or made available by 10x for download, in conjunction with Buyer’s purchase of a 10x Instrument, in object code or executable form only. 2.5 'Documentation' means the user documentation accompanying, or provided by 10x, whether physically, electronically, as available download, or by any other means, regarding or for use in connection with, a Product or related service. 2.6 'Other Software' means (i) any 10x software or firmware, other than the Licensed Software, that 10x makes available for use with 10x Instruments or otherwise, and (ii) any third party software or firmware.
'Other Software' may include open source software. 2.7 'Other License Terms' means, with respect to any Other Software, all of the terms, conditions and use restrictions set forth in the end user license agreement(s) and/or documentation accompanying and/or applicable to such Other Software.
3.0 Limited License 3.1 Limited License Grant. Subject to the terms, conditions and restrictions set forth herein and, with respect to Other Software, to the applicable Other License Terms, 10x hereby grants to Licensee a limited, non-exclusive, non-transferable, non-sublicensable license to use the Licensed Software and Documentation solely in connection with Licensee’s use of other Products in accordance with the then current Documentation. No other license or authorization is granted hereunder whether by implication, estoppel or otherwise, and 10x expressly reserves all rights not expressly granted hereunder. For example, and without limiting any of the foregoing, no right or license is granted or implied, and Licensee is not authorized to use any Product in combination with any product or method not provided, licensed or specifically recommended in writing by 10x for such use. Licensee acknowledges and agrees that the Licensed Software and Documentation is licensed and not sold by 10x, and that 10x retains all title to the Licensed Software and Documentation and each copy thereof provided to or generated by Licensee, which copies are licensed to Licensee hereunder for use in accordance with this Agreement.
Licensee may make a single machine-readable copy of the Licensed Software solely for backup or archival purposes. Licensee may make a reasonable number of copies of the Documentation solely for use in support of its use of the Licensed Software pursuant to this Agreement. Except as expressly provided in the foregoing sentence, Licensee is not authorized to make any copies of the Licensed Software or Documentation.
3.4 No Source Code. Licensee is granted no rights with respect to the Licensed Software source code. Licensee is granted no rights to, and Licensee agrees that it will not, and will not authorize or permit any third party to decompile, disassemble, or reverse engineer, or attempt to derive the source code for the Licensed Software, in whole or in part.
4.0 Restrictions 4.1 General Restrictions. 10x Genomics Software Long Ranger – Source Code 1.0.0- www.affero.org/oagpl.html Cell Ranger – Source Code 1.0.0- www.affero.org/oagpl.html Supernova – Source Code 1.0.0- www.affero.org/oagpl.html Third Party Software ace 1.1.3 Anaconda 2.2.0 angucomplete efcb312d5 angular-ui-bootstrap 0.10.0 Angular.js 1.2.9 Angular.js 1.3.0 aws-sdk-go aed0bed bcftools 9058fceb15 bedtools 2.21.0 bhtsne 64923b3 This product includes software developed by the Delft University of Technology.