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Minimum Spanning Tree-based clustering

Fast trimming of sequencing reads

Protocols (GUI part) plugin for Icy

EzPlug plugin for Icy

Template to create new Icy extension (POM file and base plugin class)

Icy is an open community platform for bioimage informatics

coverage profile from read alignments

Inferring alien oligonucleotides (adapter, primer, index, barcode, ...) without any prior or external knowledge

RSyntaxTextArea library for Icy. Badically it provides a TextArea component with syntax highlight for different languages.

Bio-Formats library patched for Icy. The patch consist of replacing Apache Commons IO library by a newer version and also replacing org.json library with the custom version embedded into Micro-Manager to make it work properly.