Index

A

alignKymos() (in module pharaglow.extract)

C

calculateMask() (in module pharaglow.tracking) centerline() (in module pharaglow.features)

cropcenterline() (in module pharaglow.features) cropImagesAroundCMS() (in module pharaglow.tracking)

E

extractImage() (in module pharaglow.tracking) extractImagePad() (in module pharaglow.tracking)

extractKymo() (in module pharaglow.extract) extractPump() (in module pharaglow.features)

F

fillMissingImages() (in module pharaglow.tracking) find_lawn() (in module pharaglow.features)

find_pumps() (in module pharaglow.extract) fitSkeleton() (in module pharaglow.features)

G

get_im() (in module pharaglow.util)

getThreshold() (in module pharaglow.tracking) gradientPharynx() (in module pharaglow.features)

H

hampel() (in module pharaglow.extract)

headLocationLawn() (in module pharaglow.features)

I

inside() (in module pharaglow.features) intensityAlongCenterline() (in module pharaglow.features)

interpolate_helper() (in module pharaglow.tracking) interpolateTrajectories() (in module pharaglow.tracking)

L

linkParticles() (in module pharaglow.tracking)

load() (in module pharaglow.io) log_setup() (in module pharaglow.io)

M

module pharaglow.extract pharaglow.features pharaglow.io pharaglow.run pharaglow.tracking pharaglow.util

morphologicalPharynxContour() (in module pharaglow.features)

N

normalVecCl() (in module pharaglow.features)

O

objectDetection() (in module pharaglow.tracking)

P

pad_images() (in module pharaglow.util) parallel_analysis() (in module pharaglow.util) parallel_imageanalysis() (in module pharaglow.tracking) parallel_pharaglow_run() (in module pharaglow.run) parallelWorker() (in module pharaglow.tracking) pharaglow.extract module pharaglow.features module pharaglow.io module

pharaglow.run module pharaglow.tracking module pharaglow.util module pharynxFunc() (in module pharaglow.features) pharynxorientation() (in module pharaglow.run) preprocess() (in module pharaglow.extract) (in module pharaglow.tracking) pumps() (in module pharaglow.extract)

R

refineWatershed() (in module pharaglow.tracking) runPharaglowCL() (in module pharaglow.run) runPharaglowImg() (in module pharaglow.run)

runPharaglowKymo() (in module pharaglow.run) runPharaglowOnImage() (in module pharaglow.run) runPharaglowSkel() (in module pharaglow.run)

S

scalarWidth() (in module pharaglow.features) skeletonPharynx() (in module pharaglow.features) smooth() (in module pharaglow.util)

sortSkeleton() (in module pharaglow.features) straightenPharynx() (in module pharaglow.features) subtractBG() (in module pharaglow.tracking)

T

thresholdPharynx() (in module pharaglow.features)

U

unravelImages() (in module pharaglow.util)

W

widthPharynx() (in module pharaglow.features)