Клон:
user/anddt/development/glm
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
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B. Watson
4d4223562b
academic/treebest-ensembl: Wrap README at 72 columns.
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| README | 4d4223562b academic/treebest-ensembl: Wrap README at 72 columns. | преди 2 години |
| doinst.sh | 2a7261353d academic/treebest-ensembl: Added (Tree Building). | преди 4 години |
| slack-desc | 2a7261353d academic/treebest-ensembl: Added (Tree Building). | преди 4 години |
| treebest-ensembl.SlackBuild | 63daf9f79a All: Support $PRINT_PACKAGE_NAME env var | преди 3 години |
| treebest-ensembl.info | 2a7261353d academic/treebest-ensembl: Added (Tree Building). | преди 4 години |
| treebest.desktop | 2a7261353d academic/treebest-ensembl: Added (Tree Building). | преди 4 години |
| treebest.png | 2a7261353d academic/treebest-ensembl: Added (Tree Building). | преди 4 години |
README
TreeBeST: Tree Building guided by Species Tree
(Ensembl Compara modifications)
TreeBeST, which stands for (gene) Tree Building guided by Species Tree,
is a versatile program that builds, manipulates and displays
phylogenetic trees. It is particularly designed for building gene trees
with a known species tree and is highly efficient and accurate.
TreeBeST is previously known as NJTREE. It has been largely used in the
TreeFam database, Ensembl Compara and OPTIC database of Chris Ponting
group.
This is the Ensembl Compara modifications version. The main new
features are:
1) -s option in treebest sdi, to allow a user-defined species tree.
T node-tag in the NHX output: a bit-field listing the input trees
2) that support the node.
3) -I option in treebest nj, to carry on the T tags from the input tree
4) -Z option in treebest best, to redefine the PhyML variable
MIN_DIFF_LK
5) -X option in treebest best, to give a higher weight to the
likelihood that comes from the reconciliation with the species tree
(default 1)
6) -I option in treebest best, to start from the input tree instead of
building one
7) Species-intersection scores are now also reported as floating-point
values under the DCS node-tag. The value is between 0 and 1, and
displayed with 4 decimals.
The script builds both the command line and GUI versions of treebest.
(Ensembl Compara modifications)
TreeBeST, which stands for (gene) Tree Building guided by Species Tree,
is a versatile program that builds, manipulates and displays
phylogenetic trees. It is particularly designed for building gene trees
with a known species tree and is highly efficient and accurate.
TreeBeST is previously known as NJTREE. It has been largely used in the
TreeFam database, Ensembl Compara and OPTIC database of Chris Ponting
group.
This is the Ensembl Compara modifications version. The main new
features are:
1) -s option in treebest sdi, to allow a user-defined species tree.
T node-tag in the NHX output: a bit-field listing the input trees
2) that support the node.
3) -I option in treebest nj, to carry on the T tags from the input tree
4) -Z option in treebest best, to redefine the PhyML variable
MIN_DIFF_LK
5) -X option in treebest best, to give a higher weight to the
likelihood that comes from the reconciliation with the species tree
(default 1)
6) -I option in treebest best, to start from the input tree instead of
building one
7) Species-intersection scores are now also reported as floating-point
values under the DCS node-tag. The value is between 0 and 1, and
displayed with 4 decimals.
The script builds both the command line and GUI versions of treebest.