UCSC RNAseq

Brain_eye_log2
track type=bigWig name="Plus eye B6" description="mRNA expression of eye in B6" visibility=full color=255,0,0 altColor=0,0,0 yLineMark=4 yLineOnOff=on priority=10 maxHeightPixels=256:256:64 autoScale=off yLineMark=4 viewLimits=2:10 yLineOnOff=on gridDefault=on bigDataUrl=ftp://tyche.uthsc.edu/user/xusheng/B6_eye_positive_log2.bw
track type=bigWig name="Minus eye B6" description="mRNA expression of eye in B6" visibility=full color=255,0,0 altColor=0,0,0 yLineMark=4 yLineOnOff=on priority=10 maxHeightPixels=256:256:64 autoScale=off yLineMark=4 viewLimits=2:10 yLineOnOff=on gridDefault=on bigDataUrl=ftp://tyche.uthsc.edu/user/xusheng/B6_eye_negative_log2.bw
track type=bigWig name="Plus eye D2" description="mRNA expression of eye in D2" visibility=full color=0,100,100 altColor=0,0,0 yLineMark=4 yLineOnOff=on priority=10 maxHeightPixels=256:256:64 autoScale=off yLineMark=4 viewLimits=2:10 yLineOnOff=on gridDefault=on bigDataUrl=ftp://tyche.uthsc.edu/user/xusheng/D2_eye_positive_log2.bw
track type=bigWig name="Minus eye D2" description="mRNA expression of eye in D2" visibility=full color=0,100,100 altColor=0,0,0 yLineMark=4 yLineOnOff=on priority=10 maxHeightPixels=256:256:64 autoScale=off yLineMark=4 viewLimits=2:10 yLineOnOff=on gridDefault=on bigDataUrl=ftp://tyche.uthsc.edu/user/xusheng/D2_eye_negative_log2.bw
track type=bigWig name="Plus brain B6" description="mRNA expression of whole brain in B6" visibility=full color=255,0,0 altColor=0,0,0 yLineMark=4 yLineOnOff=on priority=10 maxHeightPixels=256:256:64 autoScale=off yLineMark=4 viewLimits=2:10 yLineOnOff=on gridDefault=on bigDataUrl=ftp://tyche.uthsc.edu/user/xusheng/B6.negative.wig_all.bw
track type=bigWig name="Minus brain B6" description="mRNA expression of whole brain in B6" visibility=full color=255,0,0 altColor=0,0,0 yLineMark=4 yLineOnOff=on priority=10 maxHeightPixels=256:256:64 autoScale=off yLineMark=4 viewLimits=2:10 yLineOnOff=on gridDefault=on bigDataUrl=ftp://tyche.uthsc.edu/user/xusheng/B6.positive.wig_all.bw
track type=bigWig name="Plus brain D2" description="mRNA expression of whole brain in D2" visibility=full color=0,100,100 altColor=0,0,0 yLineMark=4 yLineOnOff=on priority=10 maxHeightPixels=256:256:64 autoScale=off yLineMark=4 viewLimits=2:10 yLineOnOff=on gridDefault=on bigDataUrl=ftp://tyche.uthsc.edu/user/xusheng/D2.negative.wig_all.bw
track type=bigWig name="Minus brain D2" description="mRNA expression of whole brain in D2" visibility=full color=0,100,100 altColor=0,0,0 yLineMark=4 yLineOnOff=on priority=10 maxHeightPixels=256:256:64 autoScale=off yLineMark=4 viewLimits=2:10 yLineOnOff=on gridDefault=on bigDataUrl=ftp://tyche.uthsc.edu/user/xusheng/D2.positive.wig_all.bw
track type=bigWig name="Plus brain F1" description="mRNA expression of whole brain in F1" visibility=hide color=0,0,200 altColor=0,0,0 yLineMark=4 yLineOnOff=on priority=10 maxHeightPixels=256:256:64 autoScale=off yLineMark=4 viewLimits=2:10 yLineOnOff=on gridDefault=on bigDataUrl=ftp://tyche.uthsc.edu/user/xusheng/F1.negative.wig_all.bw
track type=bigWig name="Minus brain F1" description="mRNA expression of whole brain in F1" visibility=hide color=0,0,200 altColor=0,0,0 yLineMark=4 yLineOnOff=on priority=10 maxHeightPixels=256:256:64 autoScale=off yLineMark=4 viewLimits=2:10 yLineOnOff=on gridDefault=on bigDataUrl=ftp://tyche.uthsc.edu/user/xusheng/F1.positive.wig_all.bw


eye_RNAseq_log2
track type=bigWig name="Plus eye B6" description="mRNA expression of eye in B6" visibility=full color=255,0,0 altColor=0,0,0 yLineMark=4 yLineOnOff=on priority=10 maxHeightPixels=256:256:64 autoScale=off yLineMark=4 viewLimits=2:10 yLineOnOff=on gridDefault=on bigDataUrl=ftp://tyche.uthsc.edu/user/xusheng/B6_eye_positive_log2.bw
track type=bigWig name="Minus eye B6" description="mRNA expression of eye in B6" visibility=full color=255,0,0 altColor=0,0,0 yLineMark=4 yLineOnOff=on priority=10 maxHeightPixels=256:256:64 autoScale=off yLineMark=4 viewLimits=2:10 yLineOnOff=on gridDefault=on bigDataUrl=ftp://tyche.uthsc.edu/user/xusheng/B6_eye_negative_log2.bw
track type=bigWig name="Plus eye D2" description="mRNA expression of eye in D2" visibility=full color=0,100,100 altColor=0,0,0 yLineMark=4 yLineOnOff=on priority=10 maxHeightPixels=256:256:64 autoScale=off yLineMark=4 viewLimits=2:10 yLineOnOff=on gridDefault=on bigDataUrl=ftp://tyche.uthsc.edu/user/xusheng/D2_eye_positive_log2.bw
track type=bigWig name="Minus eye D2" description="mRNA expression of eye in D2" visibility=full color=0,100,100 altColor=0,0,0 yLineMark=4 yLineOnOff=on priority=10 maxHeightPixels=256:256:64 autoScale=off yLineMark=4 viewLimits=2:10 yLineOnOff=on gridDefault=on bigDataUrl=ftp://tyche.uthsc.edu/user/xusheng/D2_eye_negative_log2.bw

RNAseq_Brain_Log
track type=bigWig name="Plus brain B6" description="mRNA expression of whole brain in B6" visibility=full color=255,0,0 altColor=0,0,0 yLineMark=4 yLineOnOff=on priority=10 maxHeightPixels=256:256:64 autoScale=off yLineMark=4 viewLimits=2:10 yLineOnOff=on gridDefault=on bigDataUrl=ftp://tyche.uthsc.edu/user/xusheng/B6.negative.wig_all.bw
track type=bigWig name="Minus brain B6" description="mRNA expression of whole brain in B6" visibility=full color=255,0,0 altColor=0,0,0 yLineMark=4 yLineOnOff=on priority=10 maxHeightPixels=256:256:64 autoScale=off yLineMark=4 viewLimits=2:10 yLineOnOff=on gridDefault=on bigDataUrl=ftp://tyche.uthsc.edu/user/xusheng/B6.positive.wig_all.bw
track type=bigWig name="Plus brain D2" description="mRNA expression of whole brain in D2" visibility=full color=0,100,100 altColor=0,0,0 yLineMark=4 yLineOnOff=on priority=10 maxHeightPixels=256:256:64 autoScale=off yLineMark=4 viewLimits=2:10 yLineOnOff=on gridDefault=on bigDataUrl=ftp://tyche.uthsc.edu/user/xusheng/D2.negative.wig_all.bw
track type=bigWig name="Minus brain D2" description="mRNA expression of whole brain in D2" visibility=full color=0,100,100 altColor=0,0,0 yLineMark=4 yLineOnOff=on priority=10 maxHeightPixels=256:256:64 autoScale=off yLineMark=4 viewLimits=2:10 yLineOnOff=on gridDefault=on bigDataUrl=ftp://tyche.uthsc.edu/user/xusheng/D2.positive.wig_all.bw
track type=bigWig name="Plus brain F1" description="mRNA expression of whole brain in F1" visibility=hide color=0,0,200 altColor=0,0,0 yLineMark=4 yLineOnOff=on priority=10 maxHeightPixels=256:256:64 autoScale=off yLineMark=4 viewLimits=2:10 yLineOnOff=on gridDefault=on bigDataUrl=ftp://tyche.uthsc.edu/user/xusheng/F1.negative.wig_all.bw
track type=bigWig name="Minus brain F1" description="mRNA expression of whole brain in F1" visibility=hide color=0,0,200 altColor=0,0,0 yLineMark=4 yLineOnOff=on priority=10 maxHeightPixels=256:256:64 autoScale=off yLineMark=4 viewLimits=2:10 yLineOnOff=on gridDefault=on bigDataUrl=ftp://tyche.uthsc.edu/user/xusheng/F1.positive.wig_all.bw

whole brain

track type=bigWig name="B6 Positive" description="mRNA expression of whole brain in B6" visibility=full color=255,0,0 altColor=0,0,0 yLineMark=4 yLineOnOff=on priority=10 maxHeightPixels=256:256:64 autoScale=off yLineMark=4 viewLimits=2:10 yLineOnOff=on gridDefault=on bigDataUrl=ftp://tyche.uthsc.edu/user/xusheng/B6.negative.wig_all.bw

track type=bigWig name="B6 Negative" description="mRNA expression of whole brain in B6" visibility=full color=255,0,0 altColor=0,0,0 yLineMark=4 yLineOnOff=on priority=10 maxHeightPixels=256:256:64 autoScale=off yLineMark=4 viewLimits=2:10 yLineOnOff=on gridDefault=on bigDataUrl=ftp://tyche.uthsc.edu/user/xusheng/B6.positive.wig_all.bw

track type=bigWig name="D2 Positive" description="mRNA expression of whole brain in D2" visibility=full color=0,100,100 altColor=0,0,0 yLineMark=4 yLineOnOff=on priority=10 maxHeightPixels=256:256:64 autoScale=off yLineMark=4 viewLimits=2:10 yLineOnOff=on gridDefault=on bigDataUrl=ftp://tyche.uthsc.edu/user/xusheng/D2.negative.wig_all.bw

track type=bigWig name="D2 Negative" description="mRNA expression of whole brain in D2" visibility=full color=0,100,100 altColor=0,0,0 yLineMark=4 yLineOnOff=on priority=10 maxHeightPixels=256:256:64 autoScale=off yLineMark=4 viewLimits=2:10 yLineOnOff=on gridDefault=on bigDataUrl=ftp://tyche.uthsc.edu/user/xusheng/D2.positive.wig_all.bw

track type=bigWig name="F1 Positive" description="mRNA expression of whole brain in F1" visibility=hide color=0,0,200 altColor=0,0,0 yLineMark=4 yLineOnOff=on priority=10 maxHeightPixels=256:256:64 autoScale=off yLineMark=4 viewLimits=2:10 yLineOnOff=on gridDefault=on bigDataUrl=ftp://tyche.uthsc.edu/user/xusheng/F1.negative.wig_all.bw

track type=bigWig name="F1 Negative" description="mRNA expression of whole brain in F1" visibility=hide color=0,0,200 altColor=0,0,0 yLineMark=4 yLineOnOff=on priority=10 maxHeightPixels=256:256:64 autoScale=off yLineMark=4 viewLimits=2:10 yLineOnOff=on gridDefault=on bigDataUrl=ftp://tyche.uthsc.edu/user/xusheng/F1.positive.wig_all.bw

Help for bigwig

http://genome.ucsc.edu/goldenPath/help/wiggle.html

sequencing

jingels Fish123!

文件大小

du --block-size=1

track

track type=bigWig name="F1 sense" description="mRNA Expression of sense in F1" visibility=full autoScale=on color=0,0,255 yLineMark=3 yLineOnOff=on priority=10 bigDataUrl=ftp://tyche.uthsc.edu/user/xusheng/F1.negative.wig_all.bw
browser position chr2:136,539,186-136,608,164

wig2bw

1. generating bw file
/home/xusheng/mRNAseq_12samples/wigToBigWig B6.negative.wig_all.log_remove ../../bc_1/output/sam2wig_new2/mm9.chrom.sizes B6.negative.wig_all.bw &

2. track type=bigWig name="Example One" description="A bigWig file" bigDataUrl=http://genome.ucsc.edu/goldenPath/help/bigWigExample.bw

track type=wiggle_0 name="variableStep" description="variableStep format" \
visibility=full autoScale=off viewLimits=0.0:25.0 color=50,150,255 \
yLineMark=11.76 yLineOnOff=on priority=10