Branch:
bedlam-name-fixes
11.0
12.0
12.1
12.2
13.0
13.1
13.37
14.0
14.1
14.2
15.0
bedlam
bedlam-name-fixes
dive
erik
gitignore
libressl-gopher-test
master
misc-fixes
python-renames
rworkman
urchlay
user/aclemons/updates
user/anddt/development/acpica
user/anddt/development/glm
user/anddt/development/gnustep-base
user/anddt/development/gnustep-make
user/anddt/games/assaultcube-reloaded
user/anddt/games/doomseeker
user/anddt/games/prboom-plus
user/anddt/games/rocksndiamonds
user/anddt/games/rottexpr
user/anddt/games/srb2
user/anddt/graphics/blender
user/anddt/graphics/maim
user/anddt/ham/chirp
user/anddt/ham/hamlib
user/anddt/libraries/girara
user/anddt/libraries/goffice
user/anddt/libraries/gtksourceview4
user/anddt/libraries/imlib2
user/anddt/libraries/jsoncpp
user/anddt/libraries/libnova
user/anddt/libraries/libopenmpt
user/anddt/libraries/libtorrent
user/anddt/libraries/wxGTK3
user/anddt/libraries/xmlrpc-c
user/anddt/misc/discount
user/anddt/misc/slop
user/anddt/network/nethogs
user/anddt/network/putty
user/anddt/network/rclone
user/anddt/network/rtorrent
user/anddt/network/sshguard
user/anddt/network/strongswan
user/anddt/network/umurmur
user/anddt/network/yt-dlp
user/anddt/network/znc
user/anddt/office/gnumeric
user/anddt/office/sigil
user/anddt/system/FontAwesome
user/anddt/system/conky
user/anddt/system/fakeroot
user/anddt/system/hplip-plugin
user/anddt/system/postgresql
user/anddt/system/testdisk
user/anddt/system/worker
user/anddt/system/xen
user/anddt/system/zzzfm
user/belka/updates
user/chris.willing/updates
user/dslackw/updates
user/elyk/updates
user/kingbeowulf/updates
user/mario/updates
user/ponce/updates
user/pprkut/updates
willysr
wxWidgets-wip
GPG-KEY
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Heinz Wiesinger
63daf9f79a
All: Support $PRINT_PACKAGE_NAME env var
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2 years ago | |
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| README | 9180142c4c academic/samtools-legacy: Added (Sequence Alignment/Map Tools). | 5 years ago |
| References | 9180142c4c academic/samtools-legacy: Added (Sequence Alignment/Map Tools). | 5 years ago |
| samtools-legacy.SlackBuild | 63daf9f79a All: Support $PRINT_PACKAGE_NAME env var | 2 years ago |
| samtools-legacy.info | 9180142c4c academic/samtools-legacy: Added (Sequence Alignment/Map Tools). | 5 years ago |
| slack-desc | 9180142c4c academic/samtools-legacy: Added (Sequence Alignment/Map Tools). | 5 years ago |
README
SAM (Sequence Alignment/Map) format is a generic format for storing
large nucleotide sequence alignments. SAM aims to be a format that:
- Is flexible enough to store all the alignment information generated
by various alignment programs
- Is simple enough to be easily generated by alignment programs or
converted from existing alignment formats
- Is compact in file size
- Allows most of operations on the alignment to work on a stream
without loading the whole alignment into memory
- Allows the file to be indexed by genomic position to efficiently
retrieve all reads aligning to a locus.
SAM Tools provide various utilities for manipulating alignments in the
SAM format, including sorting, merging, indexing and generating
alignments in a per-position format.
NOTE!
This is an older version of the program, kept here for compatibility
with Ugene. You can safely install it along the new one. When you start
Ugene, go to Settings > Preferences > External Tools and manually select
the legacy binaries in /usr/bin/
Publication:
Li H.*, Handsaker B.*, Wysoker A., Fennell T., Ruan J., Homer N.,
Marth G., Abecasis G., Durbin R. and 1000 Genome Project Data
Processing Subgroup (2009) The Sequence alignment/map (SAM) format and
SAMtools. Bioinformatics, 25, 2078-9. [PMID: 19505943]
large nucleotide sequence alignments. SAM aims to be a format that:
- Is flexible enough to store all the alignment information generated
by various alignment programs
- Is simple enough to be easily generated by alignment programs or
converted from existing alignment formats
- Is compact in file size
- Allows most of operations on the alignment to work on a stream
without loading the whole alignment into memory
- Allows the file to be indexed by genomic position to efficiently
retrieve all reads aligning to a locus.
SAM Tools provide various utilities for manipulating alignments in the
SAM format, including sorting, merging, indexing and generating
alignments in a per-position format.
NOTE!
This is an older version of the program, kept here for compatibility
with Ugene. You can safely install it along the new one. When you start
Ugene, go to Settings > Preferences > External Tools and manually select
the legacy binaries in /usr/bin/
Publication:
Li H.*, Handsaker B.*, Wysoker A., Fennell T., Ruan J., Homer N.,
Marth G., Abecasis G., Durbin R. and 1000 Genome Project Data
Processing Subgroup (2009) The Sequence alignment/map (SAM) format and
SAMtools. Bioinformatics, 25, 2078-9. [PMID: 19505943]