生物信息学课件10.pptVIP

Get exons Get exons Get SNPs Get SNPs Get SNPs Analysis Analysis Analysis Count the number of SNPs per exon Count the number of SNPs per exon Sort the exons by SNPs count Sort the exons by SNPs count Select the top 10 exons Recovering exon info and displaying data in genome browsers Recovering exon info and displaying data in genome browsers Recovering exon info and displaying data in genome browsers /teach/gtn/ GALAXY training: /tutorials/rb_rnaseq/ /library/list#folders/Ff4ce53393dae30ee Challenge RNA-seq data library: RNA-seq data analysis tutorial: * * 第十章 利用GALAXY分析NGS数据 生物信息学 DNA RNA Protein Metabolite DNA-DNA DNA-RNA RNA-RNA Protein-DNA Protein-RNA Protein-Protein High-throughput data High-throughput data Long-read ChIA-PET and 3D genome Allele-specific chromatin interactions Experiment，NGS data，Results Library preparation Illumina sequencing technology Pair-end sequencing Mate-pair sequencing Fastq file Line 1 begins with a @ character and is followed by a sequence identifier and an optional description Line 2 is the raw sequence letters. Line 3 begins with a + character and is optionally followed by the same sequence identifier (and any description) again. Line 4 encodes the quality values for the sequence in Line 2, and must contain the same number of symbols as letters in the sequence. Seq ID Raw sequencing data process Fastq files Quality control Mapping Assembly Reads mapping Genome assembly Raw sequencing data process Fastq files Quality control Mapping Assembly Sam/BAM file xx.fastq xx.sam xx.bam Sam/BAM file format Sam/BAM file format Various data types Whole genome shotgun sequence ChIP-seq RNA-seq ……….. Intervals recording file format GFF (General Feature Format) seqname - The name of the sequence. Must be a chromosome or scaffold. source - The program that generated this feature. feature - The name of this type of feature. Some examples of standard feature types are CDS start_codon stop_codon and exonli start - The starting position of th