restructure, relink and clean

README.md

aliby/cells.py

aliby/core.py

aliby/experiment.py

aliby/grouper.py

aliby/haystack.py

aliby/io/base.py

aliby/io/metadata_parser.py

aliby/io/omero.py

aliby/io/signal.py

aliby/io/writer.py

aliby/pipeline.py

aliby/segment.py

docs/matlab.md

scripts/argo_example.py

scripts/check_aggregated_metrics.py

scripts/check_gpu.py

scripts/check_ntraps_example.py

scripts/debug.py

scripts/dev_lineage.py