summaryrefslogtreecommitdiff
path: root/academic/staden/README
diff options
context:
space:
mode:
authorPetar Petrov <ppetrov@paju.oulu.fi>2011-12-22 22:43:34 -0600
committerNiels Horn <niels.horn@slackbuilds.org>2011-12-23 14:05:43 -0200
commit7bf998ee43c7d4f26d1343053a745531f23c072d (patch)
tree06a17c8aa41da0b2e7880652bf6633f88ae46ba0 /academic/staden/README
parent87040b6af56d8944a35142fe2628c2aacbbd802e (diff)
downloadslackbuilds-7bf998ee43c7d4f26d1343053a745531f23c072d.tar.gz
academic/staden: Added (DNA sequence assembly, editing, and analysis tools)
Signed-off-by: Robby Workman <rworkman@slackbuilds.org>
Diffstat (limited to 'academic/staden/README')
-rw-r--r--academic/staden/README27
1 files changed, 27 insertions, 0 deletions
diff --git a/academic/staden/README b/academic/staden/README
new file mode 100644
index 0000000000..58460934c6
--- /dev/null
+++ b/academic/staden/README
@@ -0,0 +1,27 @@
+The programs part of the Staden package provide a fully developed set
+of DNA sequence assembly, editing, analysis and more.
+
+Some of its features include:
+GAP4 - Performs assembly, contig joining, assembly checking, repeat search,
+ experiment suggestion, read pair analysis and contig editing.
+GAP5 - The new development version of Gap4, designed to work with the large
+ volumes of data attainable through the newer sequencing technologies.
+PREGAP4 - Provides a graphical user interface to set up the processing
+ required to prepare trace data for assembly or analysis.
+SPIN - Compares pairs of sequences in many ways, often presenting its results
+ graphically and has a sliding sequence window linked to the plots.
+TREV - A rapid and flexible viewer and editor for ABI, ALF or SCF trace files.
+
+For more information and citing, visit Staden's web page and check the
+"References" file in the documentation.
+
+This requires io_lib and tklib.
+
+Notes:
+1) You should run the SlackBuild in real root environment (su -)!
+2) Make sure you have Emacs and Tetex installed, as they are needed
+ to generate the documentation.
+3) Slackware's TCL and TK sources are expected to be in /tmp at build
+ time. The SlackBuild will unpack them in the build directory and
+ create the necessary symlinks in /tmp. You can safely delete the
+ symlinks when the build is complete.