Index

A

ArgumentError

B

bam_has_index() (in module riboplot.ribocore)

BamFileError

C

check_read_lengths() (in module riboplot.ribocore) check_read_lengths_offsets() (in module riboplot.ribocore) check_read_offsets() (in module riboplot.ribocore) check_required_arguments() (in module riboplot.ribocore)

check_rna_file() (in module riboplot.ribocore) create_bam_index() (in module riboplot.ribocore) create_parser() (in module riboplot.ribocount) (in module riboplot.riboplot)

E

ErrorLogFormatter (class in riboplot.ribocount) (class in riboplot.riboplot)

F

filter_ribo_counts() (in module riboplot.ribocore)

G

get_color_palette() (in module riboplot.riboplot) get_fasta_record() (in module riboplot.ribocore) get_fasta_records() (in module riboplot.ribocore) get_first_transcript_name() (in module riboplot.ribocore)

get_longest_orf() (in module riboplot.ribocore) get_ribo_counts() (in module riboplot.ribocore) get_rna_counts() (in module riboplot.riboplot) get_start_stops() (in module riboplot.riboplot) get_three_frame_orfs() (in module riboplot.ribocore)

I

is_bam_valid() (in module riboplot.ribocore)

is_fasta_valid() (in module riboplot.ribocore)

L

lengths_offsets() (in module riboplot.ribocore)

M

main() (in module riboplot.ribocount) (in module riboplot.riboplot)

O

open_pysam_file() (in module riboplot.ribocore)

P

plot_profile() (in module riboplot.riboplot)

ProductionConfig (class in riboplot.config)

R

RiboCountError riboplot.config (module) riboplot.ribocore (module) riboplot.ribocount (module)

riboplot.riboplot (module) RiboPlotError RNACountsError run() (in module riboplot.ribocount) (in module riboplot.riboplot)

S

set_axis_color() (in module riboplot.riboplot)

T

TestingConfig (class in riboplot.config)