Samtools
Samtools
http://samtools.sourceforge.net
processing sequence alignments in SAM and BAM formats
Samtools is a set of utilities that manipulate nucleotide sequence alignments in the binary BAM format. It imports from and exports to the ascii SAM (Sequence Alignment/Map) format, does sorting, merging and indexing, and allows to retrieve reads in any regions swiftly. It is designed to work on a stream, and is able to open a BAM (not SAM) file on a remote FTP or HTTP server.
Licensing
License
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License
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Debian: Charles Plessy <plessy@debian.org>
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License: mit
License
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Debian: Charles Plessy <plessy@debian.org>
Verified on
30 March 2013
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License: netbsd-similar
NetBSD-similar Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: 1. Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. 2. Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. . THIS SOFTWARE IS PROVIDED BY THE AUTHOR AND CONTRIBUTORS ``AS IS AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE AUTHOR OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY
OF SUCH DAMAGE.License
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Debian: Charles Plessy <plessy@debian.org>
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30 March 2013
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License: zlib
zlib This software is provided 'as-is', without any express or implied warranty. In no event will the authors be held liable for any damages arising from the use of this software.
Permission is granted to anyone to use this software for any purpose, including commercial applications, and to alter it and redistribute it freely, subject to the following restrictions:
1. The origin of this software must not be misrepresented; you must not claim that you wrote the original software. If you use this software in a product, an acknowledgment in the product documentation would be appreciated but is not required. 2. Altered source versions must be plainly marked as such, and must not be misrepresented as being the original software. 3. This notice may not be removed or altered from any source distribution.
Jean-loup Gailly Mark Adler jloup@gzip.org
madler@alumni.caltech.eduLicense
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Debian: Charles Plessy <plessy@debian.org>
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30 March 2013
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License: md5-fourmilab
MD5-fourmilab This code implements the MD5 message-digest algorithm. The algorithm is due to Ron Rivest. This code was written by Colin Plumb in 1993, no copyright is claimed. This code is in the public domain; do with it what you wish. . Equivalent code is available from RSA Data Security, Inc. This code has been tested against that, and is equivalent, except that you don't need to include two pages of legalese with every copy.
To compute the message digest of a chunk of bytes, declare an MD5Context structure, pass it to MD5Init, call MD5Update as needed on buffers full of bytes, and then call MD5Final, which
will fill a supplied 16-byte array with the digest.License
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Debian: Charles Plessy <plessy@debian.org>
Verified on
30 March 2013
Notes
License: public-domain
public-domain This file is part of PDCurses (http://pdcurses.sourceforge.net/), which is in the public
domain.
Leaders and contributors
Resources and communication
| Audience | Resource type | URI |
|---|---|---|
| Debian (Ref) | https://tracker.debian.org/pkg/samtools | |
| Download | https://github.com/samtools/samtools/archive/0.1.19.tar.gz |
Software prerequisites
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The copyright and license notices on this page only apply to the text on this page. Any software or copyright-licenses or other similar notices described in this text has its own copyright notice and license, which can usually be found in the distribution or license text itself.