GOMAP
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Introduction
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Setup
Running GOMAP
GOMAP
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C
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D
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F
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G
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I
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M
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T
A
aggregate() (in module code.gomap_aggregate)
aggregate_datasets() (in module code.pipeline.make_aggregate)
C
check_bl_out() (in module code.utils.blast_utils)
check_output_and_run() (in module code.utils.basic_utils)
clean_duplicate() (in module code.pipeline.make_aggregate)
clean_input() (in module code.pipeline.clean_input)
clean_raw_gaf() (in module code.process.clean_uniprot)
clean_redundant() (in module code.pipeline.make_aggregate)
clean_tair_data() (in module code.process.clean_tair)
clean_tair_fasta() (in module code.process.clean_tair)
clean_uniprot_data() (in module code.process.clean_uniprot)
clean_uniprot_fasta() (in module code.process.clean_uniprot)
code (module)
code.gomap_aggregate (module)
code.gomap_preprocess (module)
code.gomap_setup (module)
code.pipeline (module)
code.pipeline.clean_input (module)
code.pipeline.make_aggregate (module)
code.pipeline.mixed2gaf (module)
code.pipeline.run_argot2 (module)
code.pipeline.run_iprs (module)
code.pipeline.run_mm_preproc (module)
code.pipeline.run_pannzer (module)
code.pipeline.run_rbh_blast (module)
code.process (module)
code.process.clean_tair (module)
code.process.clean_uniprot (module)
code.utils (module)
code.utils.basic_utils (module)
code.utils.blast_utils (module)
code.utils.get_longest_transcript (module)
code.utils.split_fa (module)
combine_blast_xml() (in module code.utils.blast_utils)
compile_blast_out() (in module code.pipeline.run_mm_preproc)
convert_blast() (in module code.pipeline.run_argot2)
copy_blast() (in module code.pipeline.run_pannzer)
copy_input() (in module code.utils.basic_utils)
D
download_argot2() (in module code.pipeline.run_argot2)
download_gaf() (in module code.process.clean_uniprot)
download_uniprot_fasta() (in module code.process.clean_uniprot)
F
filter_mixed() (in module code.pipeline.mixed2gaf)
G
get_files_with_ext() (in module code.utils.basic_utils)
get_longest_transcript() (in module code.utils.get_longest_transcript)
get_rbh_annotations() (in module code.pipeline.run_rbh_blast)
I
init_dirs() (in module code.utils.basic_utils)
iprs2gaf() (in module code.pipeline.run_iprs)
M
make_blastdb() (in module code.utils.blast_utils)
make_dir() (in module code.utils.basic_utils)
make_input_blastdb() (in module code.pipeline.run_rbh_blast)
make_tmp_fa() (in module code.pipeline.run_mm_preproc)
make_uniprotdb() (in module code.pipeline.run_mm_preproc)
mixed2gaf() (in module code.pipeline.mixed2gaf)
O
outcols (in module code.pipeline.run_rbh_blast)
P
process_argot2() (in module code.pipeline.run_argot2)
process_fasta() (in module code.pipeline.run_mm_preproc)
R
run_hmmer() (in module code.pipeline.run_argot2)
run_iprs() (in module code.pipeline.run_iprs)
run_pannzer() (in module code.pipeline.run_pannzer)
run_preprocess() (in module code.gomap_preprocess)
run_tair_blast() (in module code.pipeline.run_rbh_blast)
run_uniprot_blast() (in module code.pipeline.run_mm_preproc)
(in module code.pipeline.run_rbh_blast)
S
setup() (in module code.gomap_setup)
split_fasta() (in module code.utils.split_fa)
submit_argot2() (in module code.pipeline.run_argot2)
T
tair_go2gaf() (in module code.process.clean_tair)
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