Software solutions for all your research needs

The single-molecule sensitivity and visualization makes quantitative RNA in situ hybridization analysis a cutting edge solution. Although many labs do evaluate target probe signals manually using scoring guidelines, the tasks are time consuming and prone to subjectivity and poor reproducibility. Advanced Cell Diagnostics have partnered with Indica Labs and Leica Biosystems to facilitate and improve quantitative scoring. These advanced image analysis solution brings objective and accurate quantification to RNA in situ hybridization. For the first time, gene expression can be measured quantitatively and interpreted by research pathologists within histopathological context.

You can select from HALO® Software from Indica Labs or Aperio RNA ISH Algorithm by Leica Biosystems for automated image analysis solutions for RNAscope™ Assays.

Which Software is right for me?

Aperio RNA ISH Algorithm

HALO Software


Aperio RNA ISH Algorithm by Leica Biosystems

Indica Labs


Quantitative and semi-quantitative outputs Singleplex, brightfield quantification Duplex, brightfield quantification- Red/Green Count individual cells or clusters Identify subcellular location of signal (nucleus, cytoplasm) Compatible with full Aperio Digital Pathology solution

Quantitative and reproducible RNAscope spot counting Easy to use and learnSingle-plex, and multiplex ISH quantification Brightfield and fluorescent ISH quantification Cell-by-cell expression profiles Automatic generation of H-scores and histograms Rapid whole-slide analysis Characterization of cell populations

Assay Compatibility

RNAscope™ 2.5 HD Reagent Kit—BROWN RNAscope™ 2.5 HD Reagent Kit—RED RNAscope™ 2.5 HD Duplex Reagent Kit RNAscope™ 2.5 LS Reagent Kit—BROWN RNAscope™ 2.5 LS Reagent Kit—RED RNAscope™ 2.5 VS Reagent Kit—BROWN RNAscope™ 2.5 VS Reagent Kit—RED

RNAscope™ 2.5 HD Reagent Kit—BROWN RNAscope™ 2.5 HD Reagent Kit—RED RNAscope™ 2.5 HD Duplex Reagent Kit RNAscope™ Multiplex Fluorescent Reagent Kit RNAscope™ 2.5 LS Reagent Kit—BROWN RNAscope™ 2.5 LS Reagent Kit—RED RNAscope™ 2.5 VS Reagent Kit—BROWN RNAscope™ 2.5 VS Reagent Kit—RED

ACD Professional Assay Services

Image analysis service available

Image analysis service available

Commercial Availability

Available for purchase from Leica Biosystems

Available for purchase from Indica Labs

License Type

One-time license

Annual or perpetual options available for single-seat or multi-seat licenses

Aperio RNA ISH Algorithm is: For Research Use Only. Not For Use In Diagnostic Procedures.

Contact Us

Complete one of the three forms below and we will get back to you.

For Quote Requests, please provide more details in the Contact Sales form below

Advanced Cell Diagnostics

Our new headquarters office starting May 2016:

7707 Gateway Blvd.  
Newark, CA 94560
Toll Free: 1 (877) 576-3636
Phone: (510) 576-8800
Fax: (510) 576-8798



19 Barton Lane  
Abingdon Science Park
OX14 3NB
United Kingdom
Phone 2: +44 1235 529449
Fax: +44 1235 533420


Advanced Cell Diagnostics China

20F, Tower 3,
Raffles City Changning Office,
1193 Changning Road, Shanghai 200051


For general information:
For place an order:
For product support:
For career opportunities: