Run Report
1
Samples
2
Mapping
2.1
Table of mapping statistic
2.2
Boxplots of mapping staststic
2.2.1
No. of sequencing reads
2.2.2
No. of uniquely mapped reads
2.2.3
Unique mapping rate
2.2.4
Multi mapping rate
2.2.5
Total mapping rate
2.3
BigWig files
3
Peak Calling
3.1
No. of peaks
3.2
No. of peaks by the consensus level
3.2.1
All samples (n=22)
3.2.2
FV (n=5)
3.2.3
FD (n=5)
3.2.4
MV (n=6)
3.2.5
MD (n=6)
3.3
Consensus peaks across factors of interests
3.4
Fraction of Read in Peaks (FRiP)
3.5
Heatmap
3.6
PCA
4
Peak Annotations
4.1
No. of peaks by group
4.2
No. of peaks by chromosome
4.3
No. of genes enrichred in peaks
4.3.1
Non-intergenic peaks only
4.3.2
Peaks in TSS (<2kb)
4.4
Genomic feature of peaks
4.5
Distance to TSS
4.6
Peak frequency over TSS
4.7
Peak heatmap over TSS
5
Differential Binding Region - DiffBind
5.1
No. of DBR
5.1.1
adjutedd P-val<0.05
5.1.2
adjutedd P-val<0.01:
5.2
Genomic feature of DBRs
5.3
DBR from DESeq2
5.3.1
Normalisation factors
5.3.2
Male (MD vs MV)
5.4
DBR from edgeR
5.4.1
Normalisation factors
5.4.2
Male (MD vs MV)
5.5
Normalisation parameters
References
5.6
sessionInfo
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SLX-16110-16111 Run Report (ChIP-Seq)
SLX-16110-16111 Run Report (ChIP-Seq)
Sung Gong
2021-02-16
1
Samples