Deliverables: Next Generation Data analysis

Next Generation Data Analysis Deliverables

Whole Genome & targeted re-sequencing Transcriptome analysis Small RNA analysis De novo assembly ChIP-Seq analysis
SNVs Read counts Reads counts Asembled contigs and scaffolds Protein bound regions
Small insertions and deletions RPKM values Mapped reads in BAM format Quality reports Motif analysis
Structural variations Expressed SNVs Coverage files (wig format) Mapped reads in BAM format
Mapped reads in BAM format Alternative splice events Quality reports Coverage files (wig format)
Coverage files (wig format) Novel transcribed regions Quality reports
Quality reports Mapped reads in BAM format
Coverage files (wig format)
Quality reports

 

QA/QC reports

Primary analysis Secondary analysis Tertiary analysis
Summary on reference sequence or genomic reference (length, composition, gaps) Summary of matching results SNP frequency report
Reports on raw data based on quality values
a. Avg. quality value by base position of the read

b. Distribution of quality values 		Coverage distribution (for each chromosome/reference sequence) Report on indel sizes
Summary of raw read sequences Regions not covered after mapping Distribution of expression values (ex. RPKM values)
Total number of reads by tile/panel Distribution of matched read lengths Distribution lengths of peak regions
Base composition by base position of the read Error rates by base position of the read sequence Distribution of small RNA lengths
Distribution of read lengths Data visualization
De novo assembly report (N50 calculation, distribution contig lengths, base compostion of assembled contigs), and etc…

 

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