A collection of pre-computed SNP Effect Matrix objects to be used for motif scoring
Format
sc
A SNPEffectMatrixCollection object containing 223 SEMs as SNPEffectMatrix objects and a data frame with 223 rows and 13 columns containing meta data:
- transcription_factor
Transcription factor name
- ensembl_id
Ensembl id
- ebi_complex_ac
- uniprot_ac
Uniprot accession id
- PWM_id
Position weighted matrix id
- SEM
SNP Effect Matrix file
- SEM_baseline
SNP Effect Matrix baseline
- cell_type
Cell Type
- neg_log10_pval
-log10(p value) from SEMpl calculation
- chip_ENCODE_accession
ENCODE accession for ChIP data used in SEMpl
- dnase_ENCODE_accession
ENCODE accession for DNase data used in SEMpl
- PWM_source
Position weighted matrix source
- SEM_KEY
SEM id, used as data table key
...