Sample ID: | Sample_0838 |
Biosample name: | YF |
Biosample type: | Primary Cell |
Tissue type: | Blood |
Cancer type: | The Yellow fever |
Region number: | 8298 |
Length: | 3063.236 kb |
GEO/SRA ID: | SRR5839490 |
Mean insert size: | 121.623 |
Standard deviation: | 87.278 |
TSS enrichment score: | 4.92683 |
FRiP: | 0.03552 |
Diasgnostic plot | |
|
Plot A: a pie chart of annotated genomic features. |
Note A: the proportion of annotating genomic region (Promoter, 5'UTR, 3'UTR, Exon, Intron, Downstream and Intergenic). |
Plot B: a heatmap of peaks binding to TSS region. |
Note B: the profile of ATAC peaks binding to TSS region (+/- 1kb). |
Read mapping: | bowtie2(v2.2.5) -p 10 -X 2000 -x -S |
Duplicates Removing: | picard MarkDuplicates REMOVE_DUPLICATES=true ASSUME_SORTED=true |
Peak calling: | macs2(2.1.2) --broad--SPMR --nomodel --extsize 200 -q 0.01 |
Trimming the adapter: | trim_galore --phred33 --stringency 3 --length 20 |