svamp

SVAMP: Sequence Variation Analysis, Maps and Phylogeny, Bioinformatics (2014). SVAMP is a stand-alone desktop application to visualise genomic variants (in VCF format) in the context of geographical metadata. Users of SVAMP are able to generate phylogenetic trees and perform principal co-ordinates analysis (PCoA) in real time from VCF and associated metadata files. Allele frequency map, geographical map of isolates, Tajimas D metric, SNP density, GC and variation density are also available for visualisation in real-time.

Name		Name	Last commit message	Last commit date
Latest commit History 3 Commits
bin		bin
dataset		dataset
html		html
images		images
qss		qss
temp		temp
.gitignore		.gitignore
README.md		README.md
alglibinternal.cpp		alglibinternal.cpp
alglibinternal.h		alglibinternal.h
alglibmisc.cpp		alglibmisc.cpp
alglibmisc.h		alglibmisc.h
annotation.cpp		annotation.cpp
annotation.h		annotation.h
ap.cpp		ap.cpp
ap.h		ap.h
basecoveragedialog.cpp		basecoveragedialog.cpp
basecoveragedialog.h		basecoveragedialog.h
basecoveragedialog.ui		basecoveragedialog.ui
bedmock.bed		bedmock.bed
colors.cpp		colors.cpp
colors.h		colors.h
colors.ui		colors.ui
combinedialog.cpp		combinedialog.cpp
combinedialog.h		combinedialog.h
combinedialog.ui		combinedialog.ui
dbquery.cpp		dbquery.cpp
dbquery.h		dbquery.h
dist.c		dist.c
dist.h		dist.h
dojopiemap.cpp		dojopiemap.cpp
dojopiemap.h		dojopiemap.h
feedback.cpp		feedback.cpp
feedback.h		feedback.h
feedback.ui		feedback.ui
fitch.c		fitch.c
gmap.cpp		gmap.cpp
gmap.h		gmap.h
gridscene.h		gridscene.h
groupmanager.cpp		groupmanager.cpp
groupmanager.h		groupmanager.h
groupmanager.ui		groupmanager.ui
jbrowsesettingdialog.cpp		jbrowsesettingdialog.cpp
jbrowsesettingdialog.h		jbrowsesettingdialog.h
jbrowsesettingdialog.ui		jbrowsesettingdialog.ui
lexer.l		lexer.l
linalg.cpp		linalg.cpp
linalg.h		linalg.h
log.cpp		log.cpp
log.h		log.h
log.ui		log.ui
lookseqwindow.cpp		lookseqwindow.cpp
lookseqwindow.h		lookseqwindow.h
lookseqwindow.ui		lookseqwindow.ui
main.cpp		main.cpp
mainwindow.cpp		mainwindow.cpp
mainwindow.h		mainwindow.h
mainwindow.ui		mainwindow.ui
mapalleledialog.cpp		mapalleledialog.cpp
mapalleledialog.h		mapalleledialog.h
mapalleledialog.ui		mapalleledialog.ui
mapdatahandler.cpp		mapdatahandler.cpp
mapdatahandler.h		mapdatahandler.h
mapdialog.cpp		mapdialog.cpp
mapdialog.h		mapdialog.h
mapdialog.ui		mapdialog.ui
mappage.cpp		mappage.cpp
mappage.h		mappage.h
menu.cpp		menu.cpp
menu.h		menu.h
nexusutils.cpp		nexusutils.cpp
nexusutils.h		nexusutils.h
parser.y		parser.y
pcoa.cpp		pcoa.cpp
pcoa.h		pcoa.h
pcoadialog.cpp		pcoadialog.cpp
pcoadialog.h		pcoadialog.h
pcoadialog.ui		pcoadialog.ui
phylip.c		phylip.c
phylip.h		phylip.h
phylipInput		phylipInput
point.cpp		point.cpp
point.h		point.h
save.cpp		save.cpp
save.h		save.h
save.ui		save.ui
searchresult.cpp		searchresult.cpp
searchresult.h		searchresult.h
sequence.cpp		sequence.cpp
sequence.h		sequence.h
sgraphicsview.cpp		sgraphicsview.cpp
sgraphicsview.h		sgraphicsview.h
snpselectiondialog.cpp		snpselectiondialog.cpp
snpselectiondialog.h		snpselectiondialog.h
snpselectiondialog.ui		snpselectiondialog.ui
sourcesdialog.cpp		sourcesdialog.cpp
sourcesdialog.h		sourcesdialog.h
sourcesdialog.ui		sourcesdialog.ui
stdafx.h		stdafx.h
svamp.pro		svamp.pro

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