Ns126:Heyn2016: Difference between revisions
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>Shicheng (→Sample) |
>Shicheng |
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== Fastq to Bam == | == Fastq to Bam == | ||
== Bam to Hapinfo == | |||
== Haploinfo to Methylation Haplotype Block (MHB) == | |||
== Hapinfo to Methylation Haplotype Load == | |||
===trim_glore=== | ===trim_glore=== | ||
===Alignment=== | ===Alignment=== |
Revision as of 21:43, 4 March 2016
Background
Method
Sample
- assemble sample config file
- ftp://ftp.ddbj.nig.ac.jp/ddbj_database/dra/fastq/SRA112/SRA112056/
- paired-end DNA sequencing (two reads of 100 bp each) using the Illumina HiSeq 2000
SRA Download
- SRA: ftp://ftp-trace.ncbi.nlm.nih.gov/sra/sra-instant/reads/ByStudy/sra/SRP%2FSRP033%2FSRP033252
- GEO: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE52271
- GEO Download: ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE52nnn/GSE52271/suppl/
- GEO Download: ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE52nnn/GSE52272/suppl/