Compare TFBS mutations (analysis)
From BioUML platform
- Analysis title
Compare TFBS mutations
- Provider
- Institute of Systems Biology
- Class
CompareTFBSMutations- Plugin
- ru.biosoft.bsa (Bio-sequences analyses plugin)
Description
Find transcription factors that have different proportions of site losses(gains) in two datasets.
Parameters:
- Experiment VCF track – Experiment VCF track
- Control VCF track – Control VCF track
- Genome – Reference genome
- Sequences source – Select database to get sequences from or 'Custom' to specify sequences location manually
- Sequence collection – Specify path to folder containing sequences if 'Custom' sequences source is selected
- Profile – Predefined set of site models
- P-value cutoff – P-value cutoff
- Input size limit – If the input VCF larger than this limit, the VCF track will be randomly subsampled to this size.
- Site gains table – Table with transcription factors which change frequency of site gains between experiment and control
- Site losses table – Table with transcription factors which change frequency of site losses between experiment and control
