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James Cai (2025). PGEToolbox (https://github.com/jamesjcai/PGEToolbox), GitHub. Retrieved .
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- MDMR_test
- PGEDEMO.m
- PGEGUI
- barplot4structure
- beaglerun
- braycd
- brunnermunzeltest
- cdpge
- centromerecoord
- chkmbeinstall
- chrlen
- chrlen_hg18
- chrlen_hg19
- chrloc2num
- coalsimdlg
- coalsimdlg2
- coaltime
- coolloci
- corrperm
- counthaplotype
- countsegregatingsites
- cuffgtf2bed
- detectingprob
- dprstable
- dsdn
- dspsdnpn
- emldrun
- encodecoord
- esf
- estimatetheta
- extractdegeneratesites
- extractsegregatingsites
- faywu00h
- faywu00h_simu
- faywu00h_test
- fdist2run
- fdist2test
- fixprob
- fixprobh
- fixtime
- flignerkilleen
- fourgamete
- fst2
- fst3
- fst_weir
- fstvsrr.m
- fu97fs
- fu97fs_largen
- fuli93dsfs
- fuli93dsfs_simu
- fuli93dsfs_test
- gegenbauerc
- genedrift
- geneticsim
- genomelen
- genometrack
- gunzip_nojava
- gwascatalog
- hap_coloredsqu
- hap_maf
- hap_pickmarker
- hapdiv
- hapdiv_simu
- hapdiv_test
- haphom
- haploviewrun
- hapsharing
- harpending94rag
- hasgap
- heateqex2
- hgmutrate
- hgnc_approved_symbol
- histsfs
- hudsonetal94.m
- hudsonkaplan85rm
- hwe
- ideogram
- install.m
- kimura55
- kimura62
- kimuradrift
- line4mkrpf
- line4sewfww
- linkdisequ
- lsln
- lsln_hgcorrected
- mantel67test
- matrixcolor
- mcdonald98.m
- mismch
- mktestcmd
- mktestgui
- ms_exe
- mshot_exe
- msrun
- mutcsqmat
- myersgriffiths03r
- nimh
- nucdiv
- nucdiv2
- numvlabel
- par_snp_fst
- par_snp_maf
- pge_demo1.m
- pge_demo2.m
- pge_openfile
- pge_printaln
- pge_savefile
- pge_viewdata
- pspn
- r2_test
- raggedness
- randpdf
- randpdf_test.m
- readhaploviewblockoutput
- readmsoutput
- readstructureoutput
- reportpolysites
- samplepanel_1kg
- scatterbin
- seqtool
- sewfww
- sewfww_sampledata
- sfs
- sfsfolded
- sfsunfolded
- slidingfun
- slidingwin
- smplpop_mapping_1kgenomes
- snp_012geno
- snp_01geno
- snp_12geno
- snp_allefreq
- snp_ancalle
- snp_ancallechimp
- snp_ancallele
- snp_batchhapmap.m
- snp_breaktrio
- snp_complike
- snp_daf
- snp_dbsnpinfo
- snp_dbsnpquery
- snp_ddgeno
- snp_diversity
- snp_download1000genomes
- snp_download1000genomes2
- snp_downloadhaplotype
- snp_downloadhapmap
- snp_downloadhapmap3
- snp_downloadhapmapfreq
- snp_downloadperlegen
- snp_ehh
- snp_ehhm
- snp_fastphaserun
- snp_faywu00h
- snp_faywu00h_anc
- snp_fgt
- snp_fis
- snp_frapperun
- snp_frc
- snp_freqpie
- snp_fst
- snp_fst3
- snp_fstmat
- snp_fstquery
- snp_geno2hap
- snp_genofreq
- snp_genoprct
- snp_genotranspose
- snp_hap2aln
- snp_hap2geno
- snp_hap2seq
- snp_hapcsh.m
- snp_hapentropy
- snp_hapfreqem
- snp_hapfreqxdist
- snp_haphet
- snp_haphom
- snp_haphomozygosity
- snp_haploreginfo
- snp_haploview
- snp_hapmapchild
- snp_hapsharing
- snp_hapsimilarity
- snp_het2maf
- snp_heterozygosity
- snp_hhgeno
- snp_hwetest
- snp_hwpvalue
- snp_ihs
- snp_ihsregion
- snp_ihsscatter
- snp_ihssingle
- snp_impute
- snp_interpopdiv
- snp_intersectgeno
- snp_ldblock
- snp_ldbyemld
- snp_ldbyhaploview
- snp_ldpair
- snp_ldpairh
- snp_ldplot
- snp_locator
- snp_maf
- snp_markbplen
- snp_marklen
- snp_mergemarkinfo
- snp_mhh
- snp_mhhtest
- snp_obshet
- snp_pca
- snp_phaserun
- snp_pic
- snp_pickmarker
- snp_plemrun
- snp_plotmarkpos
- snp_predhet
- snp_readcosioutfile
- snp_readfastphaseout
- snp_readhaplotype
- snp_readhapmap
- snp_readhapmaphuge
- snp_readlinkage
- snp_readlinkage_old
- snp_readmsoutfile
- snp_readpedfile
- snp_readperlegen
- snp_readphaseout
- snp_readplemout
- snp_readvcf
- snp_samplen
- snp_segsites
- snp_sfs
- snp_sfsmwu
- snp_slidingfunbybp
- snp_slidingfunbymk
- snp_slidingfunbymk
- snp_subgeno
- snp_tajima89d
- snp_thetah
- snp_thetapi
- snp_thetaw
- snp_triosort
- snp_truesfs.m
- snp_vgrsidlist
- snp_vgview
- snp_vgviewtrio
- snp_vhview
- snp_vhviewbw
- snp_vhviewms
- snp_vhviewst
- snp_viewgeno
- snp_viewmark
- snp_weblink
- snp_wirtetab
- snp_writebeagle
- snp_writefdist2
- snp_writefstat
- snp_writegda
- snp_writegdahaploid
- snp_writegenepop
- snp_writelinkage
- snp_writemsout
- snp_writephase
- snp_writeplem
- snp_writesnphap
- snp_writestructure
- snp_writesweep
- snp_writesweepfinder
- snp_xpehh
- snptool
- snptoolg
- snptoolh
- stirling1
- stnpdf
- stnpdfh
- stnpdfsmpl
- stnpdfsmpl_test.m
- strobeck87s
- sweepfinderrun
- tajima89d
- tajima89d_simu
- tajima89d_test
- thetaewens
- thetah
- thetah
- thetah_simu
- thetapi
- thetapi_simu
- thetavar
- thetaw
- thetaw_simu
- time1st2prob
- trim_gtex_id
- vcf2ped_perl.m
- wall99bq
- wallsBQ
- watterson78f
- writefasta
- zeng06e
- zeng06e_test
addins/R
addins/fdist2
addins/gzip
addins/iris
addins/mpop_mex
addins/mpop_mex/mfiles
- delta_fu97fs.m
- fu97fs_ratio
- histsmooth
- i_ldblock_rallechap
- mssimu_fu97fs.m
- poweranalysis.m
- simucode
- simucode
- simucode
- simucode - Copy.m
- simucode2
- simucode_noL
- simucode_targetfreq
- simusum
- testsum.m
addins/mpop_mex/mfiles/bimodal
addins/ms_mex
addins/plem
orphanfun
- barline
- binoci
- biomartquery
- braycurtisdist
- chencohen.m
- chrlen_old
- cioverlap
- clark90.m
- clswtest.m
- dunzip
- dzip
- frdevo
- histcontour
- islandmodel.m
- kimstephan02.m
- mbs
- pge_ini
- pgeconstant.m
- polymorphicpdf
- polyprob
- preferredcodon
- prk4structure
- scannedregn
- snp_ancalleweb
- snp_genodropbox
- snp_ldblock
- snp_ldbyhaploview
- snp_maf
- snp_mafq
- snp_phs
- snp_readmatrix
- snp_readplink
- snp_ss2rs
- snp_writelinkage
- time2abs
- time2fix
- time2prob
- varwinradii
orphanfun/rarealle_commhap_test
private
- HTMLencode
- Stirling
- UniqueValues
- brunnermunzel
- chi2test
- choosebox
- cireport
- dbscan
- dunzip
- dzip
- encodeseq
- explode
- fdrsimple
- file_viewer
- fisherextest
- freqtable
- gegenbauer_poly
- gfdrand
- gtest
- hline
- i_ask4formatid
- i_dispfooter
- i_dispheader
- i_ehh_leftrightboundries
- i_encode_n
- i_getcode4gap
- i_hap_pickmarker
- i_name10
- implode
- inputMarker
- int2chr
- largefactorial
- logfactorial
- lsquare
- mat2cellstr
- num2cellstr
- parseArgs
- pge_getprgmdir
- readsif2sbe
- removeblanks
- select1000GenomesRegion
- selectHapMapRegion
- selectMarker2Popcodes
- selectMarkerPopcode
- selectTrioBreakMethod
- seqcode
- sigtag
- sigtag2
- snp_fstat
- snp_ihh
- stirling1
- suptitle
- tableGUI
- vline
- zamplify
Versions that use the GitHub default branch cannot be downloaded
Version | Published | Release Notes | |
---|---|---|---|
1.0.0 |
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