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KZNFs423
- Information of human 423 KRAB-ZNFs gene
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chimpCorrResult.rda
- Chimpanzee correlations result from TEKRABber
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ensIDtoName()
- convert the ensID in row to gene name for heatmap visualization
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hg19age
- hg19 information including age inference
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hg19rmsk_gtf hg19rmsk_gtf
- Coordinates information of hg19 repeatmasker reference
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hg19rmsk_info
- human hg19 repeatmasker annotation file
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hg38age
- hg38 information including age inference
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hmCorrResult.rda
- Human correlations result from TEKRABber
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hmKZNFs337
- Human KRAB-Zinc-Finger gene reference data
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hmchimpGene
- Gene Expression data of human and chimpanzee
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hmchimpTE
- Transposable elements (TE) data of human and chimpanzee
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kznfsComplexHeatmap()
- Use ComplexHeatmap to visualize KZNFs data from TEKRABber result
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kznfsTEsNetwork()
- Generate KRAB-ZNFs and TEs regulatory network
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kznfsTEsPairs()
- Integrate correlation pairs of KZNFs and TEs
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pieTE()
- Abundance of TEs using pie chart in class levels
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primateGRFs
- Positive selections of primates GRFs
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resHmChimpGene
- Differentially expressed genes comparing human and chimpanzee
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resHmChimpTE
- Differentially expressed TEs comparing human and chimpanzee
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rmskFilter()
- Filter transposable elements from rmsk reference based on given their gene,
family, and class ID.
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saveTErmsk()
- extract the gene/family/class TE information from repeatmasker gtf
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teComplexHeatmap()
- Use ComplexHeatmap to visualize TEs data from TEKRABber result
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volGeneTE()
- Gene and TEs volcano plot function