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Index of /AMOS/src/Utils

File		Rev.	Age	Author	Last log entry
Parent Directory
Makefile.am		1.23	4 months	aphillippy	build compatability fixes
analyze-gene-snps		1.5	2 years	mcschatz	Force global-ish alignment, handle coverage calculations
analyzeSNPs.cc		1.9	2 months	mcschatz	Catch and report errors to the user
benchmark_qual.pl		1.1	5 years	aphillip	dirty scripts to format benchmark data
benchmark_seq.pl		1.1	5 years	aphillip	dirty scripts to format benchmark data
ca2ajscaff.pl		1.1	17 months	mcschatz	Add autojoiner support tools
cleanFrgN.pl		1.2	2 years	mcschatz	Optionally permute N's to random bases
contig2fasta.pl		1.1	17 months	mcschatz	Add autojoiner support tools
ctgovl.pl		1.5	4 years	aphillip	migration
cutFasta.pl		1.2	12 months	jamesrwhite	updated help info
cvgChop.pl		1.5	4 years	aphillip	migration
cvgStat.cc		1.2	2 years	mpop	Fixed bug that caused coredump at end of bank.
delta2clr.pl		1.4	6 months	dxpuiu	script updates for AMSOcmp-shortReads-alignmentTreimmed & minimus2 pipelines
delta2cvg.pl		1.2	6 months	dxpuiu	script updates for AMSOcmp-shortReads-alignmentTreimmed & minimus2 pipelines
filter_contig.pl		1.1	2 years	mschatz	Add filter_contig
filter_seq.pl		1.1	17 months	mcschatz	Add autojoiner support tools
filterfrg.pl		1.2	2 years	mcschatz	Add filterfrg to distribution
gene-snps.pl		1.12	17 months	mcschatz	Add check for gene length
getN50.pl		1.2	4 years	aphillip	migration
getlengths.pl		1.3	5 months	mcschatz	read from stdin if no filename specified
ktrimfrg.pl		1.1	3 years	mpop	Added ktrimfrg and modified it to handle .afg files as well.
listcontigreads.sh		1.1	2 years	mschatz	Add listcontigreads
nucmer2ovl.pl		1.1	6 months	dxpuiu	script updates for AMSOcmp-shortReads-alignmentTreimmed & minimus2 pipelines
nucmerAnnotate.pl		1.1	6 months	dxpuiu	script updates for AMSOcmp-shortReads-alignmentTreimmed & minimus2 pipelines
ovl2OVL.pl		1.1	6 months	dxpuiu	script updates for AMSOcmp-shortReads-alignmentTreimmed & minimus2 pipelines
preTA.pl		1.2	4 years	mpop	Added my changes to Adam's newest CVS tree.
preassembleFrgs.pl		1.5	2 years	mpop	preassemblerFrgs now handles polymorphisms.
pullTArchive.pl		1.1	4 years	aphillip	organizational overhaul
recallConsensus.cc		1.8	4 months	aphillippy	build compatability fixes
runAmos.cc		1.16	4 months	aphillippy	gcc 4.3 fixes
runAmos.pl		1.12	4 years	mpop	fixed a few logging issues
runTA.pl		1.2	4 years	mpop	Added my changes to Adam's newest CVS tree.
sizeFasta.pl		1.1	17 months	mcschatz	Add autojoiner support tools
sort2.pl		1.1	6 months	dxpuiu	script updates for AMSOcmp-shortReads-alignmentTreimmed & minimus2 pipelines
splitFasta.pl		1.2	12 months	jamesrwhite	updated help info
translate-fasta.pl		1.1	2 years	mcschatz	Simple tool to translate DNA in fasta to amino acid sequence
trimByOvl.cc		1.6	3 years	mpop	Semi-stable version.
updateDeltaClr.pl		1.2	7 months	dxpuiu	Program description update