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Java3D library for Icy

Jama Matrix Package library for Icy

B-spline registration adaptation for ICY based on BunwarpJ plugin from ImageJ

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

Multiple Sequence Alignment shrinking

MetroloSPIM plugin for Icy

Low-level functions for interactive communication between Icy and Matlab.

Big Image Tools - Read and write large 2D images with Icy

coverage profile from read alignments

Export sequences from Icy to Matlab *.mat files