From 97a30185ea1f66b9a25636b10793f82a965689a8 Mon Sep 17 00:00:00 2001 From: Li Fang Date: Fri, 19 Jan 2018 02:54:45 -0500 Subject: [PATCH] update examples --- example/ex1.log | 17 ----------------- example/ex1.rawcnv | 10 ---------- 2 files changed, 27 deletions(-) delete mode 100644 example/ex1.log delete mode 100644 example/ex1.rawcnv diff --git a/example/ex1.log b/example/ex1.log deleted file mode 100644 index 511a862..0000000 --- a/example/ex1.log +++ /dev/null @@ -1,17 +0,0 @@ -NOTICE: All program notification/warning messages that appear in STDERR will be also written to log file ex1.log -NOTICE: Reading marker coordinates and population frequency of B allele (PFB) from example.pfb ... Done with 93129 records -NOTICE: Reading LRR and BAF values for from father.txt ... Done with 93129 records in 4 chromosomes -NOTICE: Data from chromosome X will not be used in analysis -NOTICE: Median-adjusting LRR values for all autosome markers from father.txt by 0.0221 -NOTICE: Median-adjusting BAF values for all autosome markers from father.txt by 0.0029 -NOTICE: quality summary for father.txt: LRR_mean=0.0027 LRR_median=0.0000 LRR_SD=0.1335 BAF_mean=0.5063 BAF_median=0.5000 BAF_SD=0.0390 BAF_DRIFT=0.000037 WF=0.0184 GCWF=0.0136 -NOTICE: Reading LRR and BAF values for from mother.txt ... Done with 93129 records in 4 chromosomes -NOTICE: Data from chromosome X will not be used in analysis -NOTICE: Median-adjusting LRR values for all autosome markers from mother.txt by -0.0199 -NOTICE: Median-adjusting BAF values for all autosome markers from mother.txt by 0.0324 -NOTICE: quality summary for mother.txt: LRR_mean=0.0039 LRR_median=0.0000 LRR_SD=0.1374 BAF_mean=0.5044 BAF_median=0.5000 BAF_SD=0.0418 BAF_DRIFT=0.000140 WF=0.0100 GCWF=0.0028 -NOTICE: Reading LRR and BAF values for from offspring.txt ... Done with 93129 records in 4 chromosomes -NOTICE: Data from chromosome X will not be used in analysis -NOTICE: Median-adjusting LRR values for all autosome markers from offspring.txt by -0.0087 -NOTICE: Median-adjusting BAF values for all autosome markers from offspring.txt by 0.0260 -NOTICE: quality summary for offspring.txt: LRR_mean=0.0028 LRR_median=0.0000 LRR_SD=0.1263 BAF_mean=0.5045 BAF_median=0.5000 BAF_SD=0.0429 BAF_DRIFT=0.000293 WF=-0.0171 GCWF=-0.0100 diff --git a/example/ex1.rawcnv b/example/ex1.rawcnv deleted file mode 100644 index 37657c0..0000000 --- a/example/ex1.rawcnv +++ /dev/null @@ -1,10 +0,0 @@ -chr3:37957465-37961253 numsnp=3 length=3,789 state2,cn=1 father.txt startsnp=rs9837352 endsnp=rs9844203 conf=15.133 -chr3:75511365-75650909 numsnp=7 length=139,545 state2,cn=1 father.txt startsnp=rs4677005 endsnp=rs2004089 conf=26.863 -chr11:81181640-81194909 numsnp=9 length=13,270 state2,cn=1 father.txt startsnp=rs7947005 endsnp=rs12293984 conf=35.081 -chr20:10440279-10511908 numsnp=10 length=71,630 state2,cn=1 father.txt startsnp=rs8114269 endsnp=rs682562 conf=39.413 -chr11:55127597-55204003 numsnp=11 length=76,407 state2,cn=1 mother.txt startsnp=rs2456022 endsnp=rs7934845 conf=23.106 -chr11:539119-548884 numsnp=4 length=9,766 state5,cn=3 mother.txt startsnp=rs4963136 endsnp=rs2061586 conf=7.342 -chr11:55127597-55193702 numsnp=8 length=66,106 state1,cn=0 offspring.txt startsnp=rs2456022 endsnp=rs17498926 conf=48.156 -chr3:3974670-4071644 numsnp=50 length=96,975 state2,cn=1 offspring.txt startsnp=rs11716390 endsnp=rs17039742 conf=219.720 -chr11:81181640-81194909 numsnp=9 length=13,270 state2,cn=1 offspring.txt startsnp=rs7947005 endsnp=rs12293984 conf=41.263 -chr20:10440279-10511908 numsnp=10 length=71,630 state2,cn=1 offspring.txt startsnp=rs8114269 endsnp=rs682562 conf=41.649