Index

_

__call__() (neurosnap.protein.Protein method)

__init__() (neurosnap.protein.Protein method) __sub__() (neurosnap.protein.Protein method)

A

align() (neurosnap.protein.Protein method)

align_mafft() (in module neurosnap.msa) animate_pseudo_3D() (in module neurosnap.protein)

B

b (neurosnap.log.c attribute)

BASE_URL (neurosnap.api.NeurosnapAPI attribute) br (neurosnap.log.c attribute)

C

c (class in neurosnap.log) (neurosnap.log.c attribute) calc_lDDT() (in module neurosnap.protein) calculate_center_of_mass() (neurosnap.protein.Protein method) calculate_distance_matrix() (neurosnap.protein.Protein method)

calculate_hydrogen_bonds() (neurosnap.protein.Protein method) calculate_protein_volume() (neurosnap.protein.Protein method) calculate_rmsd() (neurosnap.protein.Protein method) calculate_surface_area() (neurosnap.protein.Protein method) chains() (neurosnap.protein.Protein method) CustomLogger (class in neurosnap.log)

D

delete_job_share() (neurosnap.api.NeurosnapAPI method)

distances_from_com() (neurosnap.protein.Protein method)

E

extract_non_biopolymers() (in module neurosnap.protein)

F

fetch_ccd() (in module neurosnap.chemicals) find_disulfide_bonds() (neurosnap.protein.Protein method) find_hydrophobic_residues() (neurosnap.protein.Protein method) find_LCS() (in module neurosnap.conformers)

find_missing_residues() (neurosnap.protein.Protein method) find_salt_bridges() (neurosnap.protein.Protein method) foldseek_search() (in module neurosnap.protein) format() (neurosnap.log.CustomLogger method)

G

g (neurosnap.log.c attribute) generate() (in module neurosnap.conformers) generate_df() (neurosnap.protein.Protein method) get_aas() (neurosnap.protein.Protein method) get_backbone() (neurosnap.protein.Protein method) get_ccds() (in module neurosnap.chemicals) get_job_file() (neurosnap.api.NeurosnapAPI method) get_job_files() (neurosnap.api.NeurosnapAPI method)

get_job_status() (neurosnap.api.NeurosnapAPI method) get_jobs() (neurosnap.api.NeurosnapAPI method) get_seqid() (in module neurosnap.msa) get_services() (neurosnap.api.NeurosnapAPI method) get_team_info() (neurosnap.api.NeurosnapAPI method) get_team_jobs() (neurosnap.api.NeurosnapAPI method) getAA() (in module neurosnap.protein) grey (neurosnap.log.c attribute)

L

log_format_basic (neurosnap.log.CustomLogger attribute)

log_format_detailed (neurosnap.log.CustomLogger attribute)

M

minimize() (in module neurosnap.conformers) models() (neurosnap.protein.Protein method) module neurosnap neurosnap.api neurosnap.chemicals neurosnap.conformers neurosnap.log neurosnap.msa neurosnap.protein

N

neurosnap module neurosnap.api module neurosnap.chemicals module neurosnap.conformers module

neurosnap.log module neurosnap.msa module neurosnap.protein module NeurosnapAPI (class in neurosnap.api)

O

o (neurosnap.log.c attribute)

P

p (neurosnap.log.c attribute) pad_seqs() (in module neurosnap.msa)

plot_pseudo_3D() (in module neurosnap.protein) Protein (class in neurosnap.protein)

R

r (neurosnap.log.c attribute) read_msa() (in module neurosnap.msa) remove() (neurosnap.protein.Protein method) remove_non_biopolymers() (neurosnap.protein.Protein method) remove_nucleotides() (neurosnap.protein.Protein method) remove_waters() (neurosnap.protein.Protein method)

renumber() (neurosnap.protein.Protein method) run_blast() (in module neurosnap.protein) run_mmseqs2() (in module neurosnap.msa) run_mmseqs2_modes() (in module neurosnap.msa) run_phmmer() (in module neurosnap.msa) run_phmmer_mafft() (in module neurosnap.msa)

S

save() (neurosnap.protein.Protein method) sdf_to_smiles() (in module neurosnap.chemicals) select_residues() (neurosnap.protein.Protein method)

set_job_note() (neurosnap.api.NeurosnapAPI method) set_job_share() (neurosnap.api.NeurosnapAPI method) smiles_to_sdf() (in module neurosnap.chemicals) submit_job() (neurosnap.api.NeurosnapAPI method)

T

to_sdf() (neurosnap.protein.Protein method)

V

validate_smiles() (in module neurosnap.chemicals)

W

write_msa() (in module neurosnap.msa)

Y

y (neurosnap.log.c attribute)