Curator Dashboard

Software tool for detection threshold aware CNV calling in matched whole exome sequencing data.

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• SciCrunch
• 6 years ago - submitted by Sarah Sandmann

Optimus is a pipeline developed by the Data Coordination Platform (DCP) of the Human Cell Atlas (HCA) Project that supports processing of any 3' single-cell and single-nuclei expression data generated with the 10x Genomic v2 or v3 assay. It is an alignment and transcriptome quantification pipeline that corrects cell barcodes, aligns reads to the genome, corrects Unique Molecular Identifiers (UMIs), generates an expression matrix in a UMI-aware manner, calculates summary metrics for genes and cells, detects empty droplets, returns read outputs in BAM format, and returns gene counts in NumPy matrix and Loom matrix formats.

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• RRID-Legacy
• 6 years ago - by Anonymous

Software tool as fully integrated online platform for performing systematic reviews of preclinical studies.

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• RRID-Legacy
• 6 years ago - submitted by Alexandra Bannach-Brown

Open source community driven guide to reproducible, ethical, inclusive and collaborative data science. Provides information that data scientists in academia, industry and government need at start of their projects to ensure that they are easy to reproduce and reuse at the end. Expanded to series of books covering reproducible research, project design, communication, collaboration, and ethical research.

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• SciCrunch
• 6 years ago - submitted by Anita Bandrowski

Web service that conducts comprehensive literature mining to identify roles of genes in addiction. Searches PubMed to find abstracts containing genes of interest and list of curated addiction related keywords.

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• RRID-Legacy
• 6 years ago - submitted by Hao Chen

Software tool to introduce gene set enrichment for mathematical biology. Measures association between disease of interest and set of genes related to biological pathway. Used for defining gene contributions based on biophysical properties, by leveraging mathematical models of biology to predict effects of genetic perturbations on particular downstream function.

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• RRID-Legacy
• 6 years ago - submitted by Amy Cochran

Spike sorting software for multi day recordings from high channel count probes during electrophysiology experiments.

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• RRID-Legacy
• 6 years ago - submitted by Gabrielle Pine

Software tool to construct 3D models of soft tissue using CT-like cross sectional imaging.

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• RRID-Legacy
• 6 years ago - submitted by Gabrielle Pine

Open source 3D printing software which supports multi part printing and has slicers.

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• RRID-Legacy
• 6 years ago - submitted by Gabrielle Pine

FC Series humidifier. Nafion tubing provides consistent, repeatable humidification of air and hydrogen across specified flow range, for portable, stationary, automotive and aerospace applications. Perma Pure Fuel Cell Humidifier features low pressure drop and do not require power to operate.

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• RRID-Legacy
• 6 years ago - submitted by Gabrielle Pine

Software used for 3D printing, can integrate with CAD software and has variety of custom settings.

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• RRID-Legacy
• 6 years ago - submitted by Gabrielle Pine

Interface processor as 512 channel stimulation and recording electrophysiology tool. Designed to be safe for human subjects.

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• RRID-Legacy
• 6 years ago - submitted by Gabrielle Pine

Fluorescence microscope capable of contrast microscopy and has ability for fully automated Differential Interference Contrast techniques. This product has been archived and replaced with the Leica DM4 B and DM6 B microscopes.

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• RRID-Legacy
• 6 years ago - submitted by Gabrielle Pine

Fluorescent microscope which supports fluorescence contrast techniques. This product is archived and has been replaced by the Leica DM4000 B LED.

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• RRID-Legacy
• 6 years ago - submitted by Gabrielle Pine

Pressure volume loop system with seven available volume segments, range of gain settings, integrated internal ECG circuit and dual pressure amplifiers. System can be used in either large or small animal subjects, depending on which size catheter is used.

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• RRID-Legacy
• 6 years ago - submitted by Gabrielle Pine

High speed flow cytometry sorter.

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• RRID-Legacy
• 6 years ago - submitted by Gabrielle Pine

Stimulus isolator which does opto-electrical isolation, signal scaling, and signal conversion.

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• RRID-Legacy
• 6 years ago - submitted by Gabrielle Pine

Programmable constant current stimulator system with 16 channels.

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• RRID-Legacy
• 6 years ago - submitted by Gabrielle Pine

Pulse generator that can hold 8 different pre-programmed paradigms all of which can use up to all 8 channels.

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• RRID-Legacy
• 6 years ago - submitted by Gabrielle Pine

Core provides access to fluorescence microscopy equipment including Deltavision OMX Blaze Super Resolution (3D-SIM/SMLM), Leica SP8 inverted confocal, La Vision Ultramicroscope II Lightsheet Microscope,Nikon Andor WD spinning disk, Nikon A1R inverted confocal x2, Olympus FV-MPERS Multi Photon,Olympus FV3000 inverted confocal (live cell) ISS Fast-FLIM, Perkin Elmer Operetta High Content Imaging, Zeiss LSM800 upright Airyscan, Zeiss LSM880 upright Airyscan fast, Zeiss Elyra/LSM880 inverted (live cell), super resolution (Airyscan/SMLM). Staff can help with image analysis, super resolution microscopy, fluorescence lifetime imaging microscopy, high content imaging and light sheet microscopy techniques.

• Resource
• RRID-Legacy
• 6 years ago - submitted by Gabrielle Pine