bx.pwm package
Submodules
- bx.pwm.bed_score_aligned_pwm module
- bx.pwm.bed_score_aligned_string module
- bx.pwm.maf_select_motifs module
- bx.pwm.position_weight_matrix module
Align
AlignScoreMatrix
PositionWeightMatrix
PositionWeightMatrix.complementMap
PositionWeightMatrix.corrected_probability_score()
PositionWeightMatrix.correlation()
PositionWeightMatrix.information_base_content()
PositionWeightMatrix.information_content_calculation()
PositionWeightMatrix.max_correlation()
PositionWeightMatrix.parse_weight()
PositionWeightMatrix.pseudocount()
PositionWeightMatrix.pwm_score()
PositionWeightMatrix.scaled()
PositionWeightMatrix.score_align()
PositionWeightMatrix.score_quantum_seq()
PositionWeightMatrix.score_reverse_seq()
PositionWeightMatrix.score_seq()
PositionWeightMatrix.simple_probability()
PositionWeightMatrix.slide_correlation()
PositionWeightMatrix.symbols
PositionWeightMatrix.to_count_matrix()
PositionWeightMatrix.to_matrix()
Reader
consensus_symbol()
isnan()
match_consensus()
reverse_complement()
rsquared()
score_align_gaps()
score_align_motif()
sum_of_squares()
- bx.pwm.pwm_score_maf module
- bx.pwm.pwm_score_motifs module
- bx.pwm.pwm_score_positions module
- bx.pwm.pwm_tests module
Module contents
Data structures and tools for working with Position Weight Matrices (PWMs).
TODO: Some of the packages in this directory are actually command line programs that provide no library functions and should be moved to the scripts directory.