PennCNV-1.0.3

.............\.gitignore

.............\README.md

.............\UNLICENSE

.............\cal_gc_snp.pl

.............\clean_cnv.pl

.............\compare_cnv.pl

.............\compile_pfb.pl

.............\convert_cnv.pl

.............\detect_cnv.pl

.............\docs

.............\....\favicon.ico

.............\....\img

.............\....\...\PennCNV_76neu_3unique_chr18.png

.............\....\...\PennCNV_76neu_3unique_chr22.png

.............\....\...\cnv_inheritance_genotype_6q27.jpg

.............\....\...\illustration_genotype_cluster.gif

.............\....\...\new.png

.............\....\...\offspring.txt.chr11.55127597.JPG

.............\....\...\offspring.txt.chr3.3974670.JPG

.............\....\...\pedigree_10q11.22.gif

.............\....\...\penncnv_beadstudio_tutorial_clip_image002.jpg

.............\....\...\penncnv_beadstudio_tutorial_clip_image002_0000.jpg

.............\....\...\penncnv_beadstudio_tutorial_clip_image002_0001.jpg

.............\....\...\penncnv_beadstudio_tutorial_clip_image004.jpg

.............\....\...\penncnv_beadstudio_tutorial_clip_image004_0000.jpg

.............\....\...\penncnv_beadstudio_tutorial_clip_image004_0001.jpg

.............\....\...\penncnv_beadstudio_tutorial_clip_image006.gif

.............\....\...\penncnv_beadstudio_tutorial_clip_image006.jpg

.............\....\...\penncnv_beadstudio_tutorial_clip_image008.jpg

.............\....\...\penncnv_beadstudio_tutorial_clip_image008_0000.jpg

.............\....\...\penncnv_beadstudio_tutorial_clip_image010.jpg

.............\....\...\penncnv_beadstudio_tutorial_clip_image010_0000.jpg

.............\....\...\penncnv_beadstudio_tutorial_gs_shot.jpg

.............\....\...\penncnv_input_clip_image002.jpg

.............\....\...\penncnv_input_clip_image004.jpg

.............\....\...\penncnv_input_clip_image006.jpg

.............\....\...\penncnv_input_clip_image008.jpg

.............\....\...\penncnv_input_clip_image010.jpg

.............\....\...\penncnv_installation_clip_image001.jpg

.............\....\...\penncnv_installation_clip_image002.jpg

.............\....\...\penncnv_installation_clip_image003.jpg

.............\....\...\penncnv_test_clip_image002.gif

.............\....\...\penncnv_tutorial_affy_gw6_clip_image001.jpg

.............\....\...\penncnv_visualization_clip_image002.jpg

.............\....\...\penncnv_visualization_clip_image004.jpg

.............\....\...\penncnv_visualization_clip_image006.jpg

.............\....\...\penncnv_visualization_clip_image008.jpg

.............\....\...\penncnv_visualization_clip_image010.jpg

.............\....\...\suptable2.jpg

.............\....\...\test_chr02.png

.............\....\...\test_chr18.png

.............\....\index.md

.............\....\misc

.............\....\....\contributing.md

.............\....\....\credit.md

.............\....\....\faq.md

.............\....\....\version_history.md

.............\....\user-guide

.............\....\..........\affy.md

.............\....\..........\annotation.md

.............\....\..........\denovo.md

.............\....\..........\download.md

.............\....\..........\input.md

.............\....\..........\install.md

.............\....\..........\joint.md

.............\....\..........\plugin.md

.............\....\..........\startup.md

.............\....\..........\test.md

.............\....\..........\trio.md

.............\....\..........\validation.md

.............\....\..........\visualization.md

.............\example

.............\.......\.RData

.............\.......\README

.............\.......\ccnvr

.............\.......\ex1.log

.............\.......\ex1.rawcnv

.............\.......\example.canary_calls

.............\.......\example.hmm

.............\.......\example.pfb

.............\.......\father.txt

.............\.......\inputlist

.............\.......\mother.txt

.............\.......\offspring.txt

.............\.......\output_expected

.............\.......\...............\ex1.bed

.............\.......\...............\ex1.log

.............\.......\...............\ex1.rawcnv

.............\.......\...............\ex1.tabcnv

.............\..