Curator Dashboard

Software Python package that wraps kallisto and bustools single-cell RNA-seq workflow. Used for single-cell RNA-seq pre-processing. Simplifies downloading and running of kallisto and bustools programs. Consists of kb ref and kb count commands. kb ref builds or downloads species specific index for pseudo alignment of reads and must be run prior to kb count and it runs kallisto index. kb count runs kallisto and bustools programs and is used for pre-processing of data from variety of single-cell RNA-seq technologies, and for number of different workflows (e.g. production of gene count matrices, RNA velocity analyses, etc.).

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• RRID-Legacy
• 7 years ago - submitted by Anita Bandrowski

Software tool to searches one or more input files for lines containing a match to a specified pattern. Prints lines that contain match for one or more patterns. Command-line utility for searching plain-text data sets for lines that match regular expression. When finds match, it copies line to standard output (by default), or produces whatever other sort of output you have requested with options.

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• RRID-Legacy
• 7 years ago - submitted by Anita Bandrowski

Software tool to select particular records in file and perform operations upon them. awk utility interprets special purpose programming language that makes it possible to handle simple data reformatting jobs with few lines of code. Source code for latest release of GNU awk is available from GNU project ftp server and its many mirrors.

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• RRID-Legacy
• 7 years ago - submitted by Anita Bandrowski

Software tool for manipulating BUS files for single cell RNA-Seq datasets. Used to error correct barcodes, collapse UMIs, produce gene count or transcript compatibility count matrices, and is useful for many other tasks.

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• RRID-Legacy
• 7 years ago - submitted by Anita Bandrowski

Software tool that provides scalable way of keeping track of data and learned annotations. Initially built for Scanpy. Used as generic class for handling annotated data matrices. Stores data matrix with annotations of observations (samples, cells) and variables (features, genes), and unstructured annotations.

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• RRID-Legacy
• 7 years ago - submitted by Anita Bandrowski

Computed tomography system designed to achieve precise inspection results for wide range of applications by YXLON. Available in single or dual tube configuration, it is perfect for very small to medium sized parts inspection in automotive, electronics, aviation, and material science industries.

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• RRID-Legacy
• 7 years ago - by Anonymous

Software tool as Galaxy wrapper providing GUI for Circos tool. Circos allows visualizing data in circular format.

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• SciCrunch
• 7 years ago - by Anonymous

Core assists investigators whose research requires molecular marker characterization of cells in suspension as well as isolation of cells based on those markers. Advanced cell sorting and cytometric analyses by Flow or Mass Cytometry are provided.

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• RRID-Legacy
• 7 years ago - submitted by Nate Herzog

Chemical inventory for occupational chemical information. Collects information from several government agencies and organizations. Includes information about identification and physical properties, exposure limits, sampling.

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• RRID-Legacy
• 7 years ago - by Anonymous

Software tool for analysis of qualitative data, operating on basis of lists of peptides and proteins identified in samples generated by Mascot database system. Responsible for preparing data for quantitative analysis of proteins both with use of stable isotope labeling and without isotope labeling.

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• RRID-Legacy
• 7 years ago - by Anonymous

Sleep analysis for animals by Kissei Comtec Co., Ltd. Enables to generate various types of reports which are required as standard in basic sleep research field like sleep quality and sleep quantity. Version 3.0 is much more faster than prior method of sleep scoring.

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• RRID-Legacy
• 7 years ago - by Anonymous

Sleep recording software by Kissei Comtech Co., Ltd. Can measure signals of up to 32 channels while monitoring wave forms in real time. Addition of video recording option enables simultaneous recording of biological signals and video.

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• RRID-Legacy
• 7 years ago - by Anonymous

Software pipeline was designed to draw gene synteny plot between genomes and obtain 1 to 1 gene pairs from each genome.

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• RRID-Legacy
• 7 years ago - submitted by Fu-Hao Lu

Web and offline tool for holistic sustainability assessment of farms. Tool operationalizes Sustainability Assessment of Food and Agriculture Systems Guidelines of Food and Agriculture Organisation of United Nations. Tool consists of questionnaire software, centralized database, pool of indicators and scientifically based assessment methodology. Different stakeholders can use results of this assessment e.g. for comparing different farms, production systems or for strategic development, improvement, monitoring and communication to business partners.

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• RRID-Legacy
• 7 years ago - by Anonymous

Next generation B and T cell sequence alignment and characterization online surface by IMGT. Web portal for immunoglobulin (IG) or antibody and T cell receptor (TR) analysis from NGS high throughput and deep sequencing.

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• RRID-Legacy
• 7 years ago - by Anonymous

Software Python tool for flow cytometry data. Data generated by flow cytometer can be read by FlowPy. Used for data extraction, data visualization, data clustering, histogram subtraction.

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• RRID-Legacy
• 7 years ago - by Anonymous

Web tool as basic math calculator to do simple calculation. Can generate any one of values from other three in half life formula for substance undergoing decay to decrease by half.

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• RRID-Legacy
• 7 years ago - by Anonymous

Software tool as code to extract electrophysiological parameters of neurons. Code is continuously being updated to handle more kinds of voltage traces and extract different kinds of features.

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• RRID-Legacy
• 7 years ago - submitted by Anita Bandrowski

Web server to predict ΔGapp for membrane insertion of potential TM helix. Given amino acid sequence of putative transmembrane helix, server gives prediction of corresponding apparent free energy difference for insertion of this sequence into Endoplasmic Reticulum membrane by means of Sec61 translocon.

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• RRID-Legacy
• 7 years ago - by Anonymous

Software R interface to g:Profiler. Uses publicly available APIs of g:Profiler web tool which ensures that results from all of interfaces are consistent. Used for gene list functional enrichment analysis and namespace conversion. gprofiler2 package supports all the same organisms, namespaces and data sources as the web tool.

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• RRID-Legacy
• 7 years ago - by Anonymous