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A
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B
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C
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D
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E
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F
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G
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H
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I
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J
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K
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L
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M
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N
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O
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P
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R
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S
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T
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U
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V
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Y
A
AdaptativeMixtureFitting (class in biokit.stats.mixture)
AIC() (in module biokit.stats.criteria)
AICc() (in module biokit.stats.criteria)
available (RPackageManager attribute)
B
BAI
BAM
BED
BIC() (in module biokit.stats.criteria)
biocLite() (in module biokit.rtools.package)
(RPackageManager method)
biokit.network (module)
biokit.network.complexes (module)
biokit.rtools (module)
biokit.rtools.package (module)
biokit.rtools.py2r (module)
biokit.rtools.r4python (module)
biokit.rtools.session (module)
biokit.rtools.tools (module)
biokit.sequence (module)
biokit.sequence.dna (module)
biokit.sequence.peptide (module)
biokit.sequence.rna (module)
biokit.sequence.seq (module)
biokit.stats (module)
biokit.stats.criteria (module)
biokit.stats.mixture (module)
biokit.taxonomy.taxonomy (module)
biokit.viz (module)
biokit.viz.core (module)
biokit.viz.corrplot (module)
biokit.viz.heatmap (module)
biokit.viz.hinton (module)
biokit.viz.hist2d (module)
biokit.viz.imshow (module)
biokit.viz.scatter (module)
biokit.viz.volcano (module)
bool2R() (in module biokit.rtools.tools)
BoolStr() (in module biokit.rtools.py2r)
ByteStr() (in module biokit.rtools.py2r)
C
chebi2name() (Complexes method)
column_method (Heatmap attribute)
column_metric (Heatmap attribute)
complement (DNA attribute)
(RNA attribute)
Complexes (class in biokit.network.complexes)
complexes (Complexes attribute)
ComplexStr() (in module biokit.rtools.py2r)
Corrplot (class in biokit.viz.corrplot)
counter (Sequence attribute)
cran_repos (RPackageManager attribute)
D
df (Corrplot attribute)
(Heatmap attribute)
diagnostic() (AdaptativeMixtureFitting method)
DNA (class in biokit.sequence.dna)
DSRC
E
EM (class in biokit.stats.mixture)
estimate() (EM method)
(GaussianMixtureFitting method)
(GaussianModel method)
(Model method)
(PoissonModel method)
F
FASTA
fetch_by_id() (Taxonomy method)
fetch_by_name() (Taxonomy method)
Fitting (class in biokit.stats.mixture)
FloatStr() (in module biokit.rtools.py2r)
frame (Heatmap attribute)
G
GaussianMixture (class in biokit.stats.mixture)
GaussianMixtureFitting (class in biokit.stats.mixture)
GaussianMixtureModel (class in biokit.stats.mixture)
GaussianModel (class in biokit.stats.mixture)
gc_content() (DNA method)
(RNA method)
generate() (GaussianModel method)
(Model method)
(PoissonModel method)
get_children() (Taxonomy method)
get_complement() (DNA method)
(RNA method)
get_dna() (RNA method)
get_family_tree() (Taxonomy method)
get_guess() (Fitting method)
get_lineage() (Taxonomy method)
get_lineage_and_rank() (Taxonomy method)
get_package_latest_version() (RPackageManager method)
get_package_version() (RPackageManager method)
get_R_version() (in module biokit.rtools.package)
get_reverse_complement() (DNA method)
(RNA method)
get_rna() (DNA method)
get_version() (RSession method)
getVec() (in module biokit.rtools.py2r)
GFF
H
hamming_distance() (Sequence method)
Heatmap (class in biokit.viz.heatmap)
hinton() (in module biokit.viz.hinton)
hist() (GaussianMixture method)
Hist2D (class in biokit.viz.hist2d)
hist_participants() (Complexes method)
histogram() (Sequence method)
I
identifiers (Complexes attribute)
Imshow (class in biokit.viz.imshow)
imshow() (in module biokit.viz.imshow)
install() (RPackage method)
(RPackageManager method)
install_package() (in module biokit.rtools.package)
installed (RPackageManager attribute)
is_installed() (RPackageManager method)
isinstalled (RPackage attribute)
J
JSON
K
k (Fitting attribute)
L
Lineage (class in biokit.taxonomy.taxonomy)
load_records() (Taxonomy method)
log_density() (GaussianModel method)
(Model method)
(PoissonModel method)
log_likelihood() (GaussianMixtureModel method)
LongStr() (in module biokit.rtools.py2r)
lower() (Sequence method)
M
method (GaussianMixtureFitting attribute)
Model (class in biokit.stats.mixture)
model (Fitting attribute)
N
N (Sequence attribute)
NumpyNdarrayStr() (in module biokit.rtools.py2r)
O
on_web() (Taxonomy method)
order() (Corrplot method)
organism (Complexes attribute)
organisms (Complexes attribute)
OtherStr() (in module biokit.rtools.py2r)
P
packages (RPackageManager attribute)
PandasDataFrameStr() (in module biokit.rtools.py2r)
PandasSerieStr() (in module biokit.rtools.py2r)
params (Corrplot attribute)
participants (Complexes attribute)
pdf() (GaussianMixtureModel method)
(GaussianModel method)
(Model method)
Peptide (class in biokit.sequence.peptide)
pie() (Sequence method)
plot() (AdaptativeMixtureFitting method)
(Corrplot method)
(EM method)
(Fitting method)
(GaussianMixture method)
(Heatmap method)
(Hist2D method)
(Imshow method)
(ScatterHist method)
(Volcano method)
PoissonModel (class in biokit.stats.mixture)
R
rcode() (in module biokit.rtools.tools)
remove() (RPackageManager method)
remove_homodimers() (Complexes method)
report() (Complexes method)
ReprStr() (in module biokit.rtools.py2r)
require() (RPackageManager method)
reverse_complement (DNA attribute)
(RNA attribute)
RNA (class in biokit.sequence.rna)
row_method (Heatmap attribute)
row_metric (Heatmap attribute)
RPackage (class in biokit.rtools.package)
RPackageManager (class in biokit.rtools.package)
RSession (class in biokit.rtools.session)
run() (AdaptativeMixtureFitting method)
S
SAM
ScatterHist (class in biokit.viz.scatter)
search() (Complexes method)
search_complexes() (Complexes method)
SeqStr() (in module biokit.rtools.py2r)
Sequence (class in biokit.sequence.seq)
sequence (Sequence attribute)
stats() (Complexes method)
Str4R() (in module biokit.rtools.py2r)
T
Taxon (class in biokit.taxonomy.taxonomy)
Taxonomy (class in biokit.taxonomy.taxonomy)
to_genbank() (Taxon method)
U
uniprot2genename() (Complexes method)
UniStr() (in module biokit.rtools.py2r)
update() (RPackageManager method)
upper() (Sequence method)
V
valid_organisms (Complexes attribute)
VCF
version (RPackage attribute)
VizInput2D (class in biokit.viz.core)
Volcano (class in biokit.viz.volcano)
Y
YAML
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