Transcriptome_resequencing_report
|-- BGI_result		[存放项目分析结果(由于文件过大，clean fq和IGV可视化需要的bam文件不放在里面)，这些文件、图表等，在结题报告中基本均有展示，具体方法和格式说明详见网页版结题报告中的帮助文档部分]
|   |-- 0.Abstract	[项目概要统计表，针对其他目录下的结果作简要的各项分析统计]
|   |   |-- diff.statistics.xls
|   |   |-- project_info.txt
|   |   |-- project_info_en.txt
|   |   `-- sample.statistics.xls
|   |-- 1.CleanDataAssess	[clean data的质量评估，包括过滤统计、各LANE碱基含量分布图和测序质量图、过滤前reads的分类占比饼图]
|   |   |-- sample1
|   |   |   |-- [LaneID_of_sample1].base.png
|   |   |   |-- [LaneID_of_sample1].qual.png
|   |   |   |-- sample1.RawReadsClass.pdf
|   |   |   |-- sample1.RawReadsClass.png
|   |   |   `-- sample1.xls
|   |-- 2.MappingAssess		[比对情况分析，包括基因和基因组的比对率统计，及reads在参考基因上的随机性评估]
|   |   |-- MapStatistics　　　　
|   |   |   |-- sample1.Bowtie2Gene.MapReadsStat.xls
|   |   |   `-- sample1.Bwa2Genome.MapReadsStat.xls
|   |   `-- ReadsRandom
|   |       |-- sample1.ReadsRandom.pdf
|   |       `-- sample1.ReadsRandom.png
|   |-- 3.QuantitativeAnalysis　　[所有关于定量分析结果，都存放在此目录下]
|   |   |-- ExonExp		
|   |   |   |-- sample1.exonCov.pdf
|   |   |   |-- sample1.exonCov.png
|   |   |   `-- sample1.exonexpr.xls
|   |   |-- GeneAndIsoformExp	
|   |   |   |-- sample1.gene.FPKM.xls
|   |   |   |-- sample1.isoform.FPKM.xls
|   |   |   |-- all.gene.FPKM.xls
|   |   |   `-- all.isoform.FPKM.xls
|   |   |-- GeneConditionSpecifity	
|   |   |   |-- sample1.spe_gene.xls
|   |   |   `-- spc_gene.png
|   |   |-- GeneCorStatAndVenn		
|   |   |   |-- Heatmap
|   |   |   |   |-- All.CorrelationHeatmap.pdf
|   |   |   |   |-- All.CorrelationHeatmap.png
|   |   |   |   `-- All.correlation.stat.xls
|   |   |   |-- Tree
|   |   |   |   |-- All.HclustTree.pdf
|   |   |   |   `-- All.HclustTree.png
|   |   |   `-- Venn
|   |   |       |-- venn_sample1-vs-HBRR2-vs-HBRR3.pdf
|   |   |       `-- venn_sample1-vs-HBRR2-vs-HBRR3.png
|   |   |-- GeneDiff
|   |   |   |-- sample2-VS-sample1.GeneDiffExp.png
|   |   |   |-- sample2-VS-sample1.GeneDiffExp.xls
|   |   |   |-- DEGstat.pndf
|   |   |   `-- DEGstat.png
|   |   |-- GeneDiff_Function
|   |   |   |-- Cluster
|   |   |   |   |-- META-INF
|   |   |   |   |-- TreeView.jar
|   |   |   |   |-- sample2-VS-sample1.UHRR2-VS-HBRR2.inter.atr
|   |   |   |   |-- sample2-VS-sample1.UHRR2-VS-HBRR2.inter.cdt
|   |   |   |   |-- sample2-VS-sample1.UHRR2-VS-HBRR2.inter.data
|   |   |   |   |-- sample2-VS-sample1.UHRR2-VS-HBRR2.inter.gtr
|   |   |   |   |-- sample2-VS-sample1.UHRR2-VS-HBRR2.inter.pdf
|   |   |   |   |-- sample2-VS-sample1.UHRR2-VS-HBRR2.inter.png
|   |   |   |   |-- sample2-VS-sample1.UHRR2-VS-HBRR2.inter.xls
|   |   |   |   |-- sample2-VS-sample1.UHRR2-VS-HBRR2.union.atr
|   |   |   |   |-- sample2-VS-sample1.UHRR2-VS-HBRR2.union.cdt
|   |   |   |   |-- sample2-VS-sample1.UHRR2-VS-HBRR2.union.data
|   |   |   |   |-- sample2-VS-sample1.UHRR2-VS-HBRR2.union.gtr
|   |   |   |   |-- sample2-VS-sample1.UHRR2-VS-HBRR2.union.pdf
|   |   |   |   |-- sample2-VS-sample1.UHRR2-VS-HBRR2.union.png
|   |   |   |   |-- sample2-VS-sample1.UHRR2-VS-HBRR2.union.xls
|   |   |   |   |-- cluster.html
|   |   |   |   |-- cluster_en.html
|   |   |   |   |-- coordinates
|   |   |   |   |-- gpl.txt
|   |   |   |   |-- images
|   |   |   |   |-- lib
|   |   |   |   |-- plugins
|   |   |   |   |-- setup.exe
|   |   |   |   |-- win32TreeView.bat
|   |   |   |   `-- windows
|   |   |   |-- GO
|   |   |   |   |-- GOView.html
|   |   |   |   |-- GOViewList.html
|   |   |   |   |-- META-INF
|   |   |   |   |-- TreeView.jar
|   |   |   |   |-- sample2-VS-sample1.GO2gene.xls
|   |   |   |   |-- sample2-VS-sample1.glist
|   |   |   |   |-- sample2-VS-sample1.goclass.pdf
|   |   |   |   |-- sample2-VS-sample1.goclass.png
|   |   |   |   |-- sample2-VS-sample1_C.html
|   |   |   |   |-- sample2-VS-sample1_C.png
|   |   |   |   |-- sample2-VS-sample1_C.txt
|   |   |   |   |-- sample2-VS-sample1_F.html
|   |   |   |   |-- sample2-VS-sample1_F.png
|   |   |   |   |-- sample2-VS-sample1_F.txt
|   |   |   |   |-- sample2-VS-sample1_P.html
|   |   |   |   |-- sample2-VS-sample1_P.png
|   |   |   |   |-- sample2-VS-sample1_P.txt
|   |   |   |   |-- cluster
|   |   |   |   |-- coordinates
|   |   |   |   |-- gpl.txt
|   |   |   |   |-- images
|   |   |   |   |-- lib
|   |   |   |   |-- plugins
|   |   |   |   |-- setup.exe
|   |   |   |   |-- win32TreeView.bat
|   |   |   |   `-- windows
|   |   |   |-- Network
|   |   |   |   |-- 9606.medusa
|   |   |   |   |-- Cytoscape.Usage_en.pdf
|   |   |   |   |-- Cytoscape.Usage.pdf
|   |   |   |   |-- Medusa.jar
|   |   |   |   |-- sample2-VS-sample1.Cytoscape.txt
|   |   |   |   |-- sample2-VS-sample1.glist
|   |   |   |   |-- sample2-VS-sample1.subnetwork
|   |   |   |   |-- lib
|   |   |   |   |-- network.html
|   |   |   |   `-- network_en.html
|   |   |   |-- Pathway
|   |   |   |   |-- sample2-VS-sample1.path.enrichment.png
|   |   |   |   |-- sample2-VS-sample1.htm
|   |   |   |   |-- sample2-VS-sample1.ko
|   |   |   |   `-- sample2-VS-sample1.path
|   |   |   `-- TranscriptionFactor
|   |   |       `-- sample2-VS-sample1.TFCodingGene.xls
|   |   `-- GenePCA
|   |       |-- PCA.exp.xls.3D.pdf
|   |       |-- PCA.exp.xls.3D.png
|   |       |-- PCA.exp.xls.pca_figure-0.png
|   |       |-- PCA.exp.xls.pca_figure-1.png
|   |       |-- PCA.exp.xls.pca_figure-2.png
|   |       |-- PCA.exp.xls.pca_figure-3.png
|   |       |-- PCA.exp.xls.pca_figure.pdf
|   |       |-- PCA.exp.xls.scatter.pdf
|   |       `-- PCA.exp.xls.scatter.png
|   `-- 4.StructureAnalysis	[所有样品的结构(定性)分析结果，都存放在此目录下]
|       |-- AlternativeSplicing
|       |   |-- sample1.A3SS.xls
|       |   |-- sample1.A5SS.xls
|       |   |-- sample1.RetainedIntron.xls
|       |   |-- sample1.SkippedExon.xls
|       |   |-- sample1.png
|       |   `-- sample1.svg
|       |-- ExtendGene
|       |   `-- sample1_ExtendGene.xls
|       |-- GeneFusion
|       |   |-- sample1.GeneFusion.png
|       |   |-- sample1.final.Fusion.specific.for.genes
|       |   |-- sample1.final.Fusion.specific.for.trans
|       |   |-- sample1.final.Junc_reads
|       |   |-- sample1.final.Span_reads
|       |   1-- sample1.fusions_expression
|       |-- Indel
|       |   `-- sample1.indel.vcf
|       |-- NovelTU
|       |   |-- sample1.Novel_TU.fa
|       |   |-- sample1.Novel_TU.xls
|       |   |-- sample1.check
|       |   `-- novelTranscript.png
|       |-- RNAedit
|       |   |-- sample1.edit.stat.pdf
|       |   |-- sample1.edit.stat.png
|       |   |-- sample1.edit.stat.xls
|       |   `-- sample1.edit.xls
|       `-- SNP
|           |-- sample1.snp.AnnotationTable.xls
|           |-- sample1.snp.annot.csv
|           |-- sample1.snp.vcf.xls
|           |-- Snp_Distr_R.pdf
|           `-- Snp_Distr_R.png
|-- Pages	[与网页版结题报告相关的其他文件，都放在此目录下]
|-- index.html	[中文版网页结题报告]
|-- index_en.html	[英文版网页结题报告首页]
|-- report.pdf		[中文PDF版结题报告]
`-- report_en.pdf	[英文PDF版结题报告]