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 | 7f80fb2d08 academic/pal2nal: Added (Create a codon-based DNA alignment). | 6 years ago |
| References | 7f80fb2d08 academic/pal2nal: Added (Create a codon-based DNA alignment). | 6 years ago |
| pal2nal.SlackBuild | 63daf9f79a All: Support $PRINT_PACKAGE_NAME env var | 2 years ago |
| pal2nal.info | f41588ed6f academic/pal2nal: Updated for version 14.1. | 6 years ago |
| slack-desc | f41588ed6f academic/pal2nal: Updated for version 14.1. | 6 years ago |
README
PAL2NAL is a program that converts a multiple sequence alignment of
proteins and the corresponding DNA (or mRNA) sequences into a codon-
based DNA alignment. The program automatically assigns the corresponding
codon sequence even if the input DNA sequence has mismatches with the
input protein sequence, or contains UTRs,polyA tails. It can also deal
with frame shifts in the input alignment, which is suitable for the
analysis of pseudogenes.
The resulting codon-based DNA alignment can further be subjected to the
calculation of synonymous (Ks) and non-synonymous (Ka) substitution
rates.
If you use PAL2NAL, please cite the following paper:
Mikita Suyama, David Torrents, and Peer Bork (2006)
PAL2NAL: robust conversion of protein sequence alignment into the
corresponding codon alignments. Nucleic Acids Res. 34:W609-W612.
proteins and the corresponding DNA (or mRNA) sequences into a codon-
based DNA alignment. The program automatically assigns the corresponding
codon sequence even if the input DNA sequence has mismatches with the
input protein sequence, or contains UTRs,polyA tails. It can also deal
with frame shifts in the input alignment, which is suitable for the
analysis of pseudogenes.
The resulting codon-based DNA alignment can further be subjected to the
calculation of synonymous (Ks) and non-synonymous (Ka) substitution
rates.
If you use PAL2NAL, please cite the following paper:
Mikita Suyama, David Torrents, and Peer Bork (2006)
PAL2NAL: robust conversion of protein sequence alignment into the
corresponding codon alignments. Nucleic Acids Res. 34:W609-W612.