Index

A

add_sequence() (oligoseq method)

addseq() (sequence method) addtag() (intinterval method)

B

biotype (sequence attribute)

C

chainlist() (oligoseq method) chains (sequence attribute) check_path() (in module crops.iomod), [1] contains() (intinterval method) copy() (intinterval method) (oligoseq method) (sequence method) create_argument_parser() (in module crops.command_line.crops_cropseq) (in module crops.command_line.crops_cropstr) (in module crops.command_line.crops_renumber) (in module crops.command_line.crops_splitseqs) crop_pdb() (in module crops.core.ops) crop_seq() (in module crops.core.ops) cropbackmap (sequence attribute) cropinfo() (sequence method) cropmap (sequence attribute) cropmsa (sequence attribute)

crops (module) crops.command_line (module) crops.command_line.crops_cropseq (module) crops.command_line.crops_cropstr (module) crops.command_line.crops_renumber (module) crops.command_line.crops_splitseqs (module) crops.core (module), [1] crops.core.ops (module) crops.elements (module), [1] crops.elements.intervals (module) crops.elements.sequences (module) crops.iomod (module), [1] crops.iomod.parsers (module) crops.iomod.taggers (module) crops.libs (module), [1] crops.libs.rescodes (module) crops_header (sequence attribute) crops_logger() (in module crops.command_line)

D

deepcopy() (intinterval method) (oligoseq method) (sequence method) del_sequence() (oligoseq method)

delseq() (sequence method) deltag() (intinterval method) description() (intinterval method) dump() (sequence method) dumpmap() (sequence method)

F

full_length() (sequence method)

G

get_sequence_alignment() (in module crops.core.ops)

guess_biotype() (sequence method) guess_type() (in module crops.elements.sequences)

I

id (oligoseq attribute) imer (oligoseq attribute) import_db() (in module crops.iomod.parsers) infix_gen() (in module crops.iomod.taggers)

infostring (sequence attribute) intersection() (intinterval method) intervals (sequence attribute) intinterval (class in crops.elements.intervals)

K

kind (intinterval attribute)

L

length() (oligoseq method) (sequence method)

M

main() (in module crops.command_line.crops_cropseq) (in module crops.command_line.crops_cropstr) (in module crops.command_line.crops_renumber) (in module crops.command_line.crops_splitseqs)

mainseq() (sequence method) makeheader() (in module crops.iomod.taggers) msa (sequence attribute)

N

n_elements() (intinterval method) name (sequence attribute) nchains() (oligoseq method)

ncrops() (sequence method) ngaps() (sequence method) nseqs() (oligoseq method)

O

oligomer_id (sequence attribute)

oligoseq (class in crops.elements.sequences) outpathgen() (in module crops.iomod), [1]

P

parse_db() (in module crops.iomod.parsers) parsemap() (in module crops.iomod.parsers) parsemapfile() (in module crops.iomod.parsers) parseseq() (in module crops.iomod.parsers)

parseseqfile() (in module crops.iomod.parsers) parsestr() (in module crops.iomod.parsers) parsestrfile() (in module crops.iomod.parsers) purge() (oligoseq method)

R

renumber_pdb() (in module crops.core.ops) renumber_pdb_needleman() (in module crops.core.ops)

ressymbol() (in module crops.libs), [1] retrieve_id() (in module crops.iomod.taggers)

S

seqs (sequence attribute) sequence (class in crops.elements.sequences) set_cropmaps() (oligoseq method) source (sequence attribute)

source_headers (sequence attribute) subint (intinterval attribute) subtract() (intinterval method) symdiff() (intinterval method)

T

tags (intinterval attribute)

target_format() (in module crops.iomod.taggers) terminals() (intinterval method)

U

union() (intinterval method)

update_cropsheader() (sequence method)

W

whatseq() (oligoseq method)

write() (oligoseq method)