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capitula-counter

This pipeline automatically counts the number of Sphagnum capitula in your images and produces crops of all the images, annotated images, which can be used to check the annotations, a CSV-file of the annotations, which can be used in annotation software (i.e. VGG), and a CSV-file with the automated count and the corrected count for all images.

ct_scanner_plotting

Plotting data from the microCT scanner

disk_creator

A script for creating a bootable USB drive from a debian based distro, with persitence and data partition

gravimetrics

Software Controller for Gravimetrics System

isq-reader

ISQ Reader for Matlab and Octave

lepton_touchscreen

A Raspberry Pi touchscreen interface for the FLIR Lepton thermal imager. Written in Python and Kivy.

micro-ct-analysing-library

microct_grain_analyser

Software for processing output of Scanco uCT machines/ any ISQ or TIF producing machine, and producing data. See instructions.pdf for full explaination.

opencv_auto_white_balance

Auto white balancing software that works well with images of plants

pat64v3_cp

A cross platform port of PAT64V3

pat64v3_w8

The version of PAT64 that Jiwan used to analyse data for the W8 experiment

photography-cube-plans

CAD models and instructions for building a small photography cube

plantreader

Plant imaging with SLR cameras and RFID tag reader

portable_imaging_rig

Software for a portable camera system which can make use of DSLR's using GPhoto2

starlight-express-linux

C program to control and query the status of a startlight xpress filterwheel.

wireless_sensors

Moteino based wireless sensors for measuring greenhouse temperature and light levels.