Curator Dashboard

Software tool for de novo transcriptome assembly from RNA-Seq data.

• Resource
• SciCrunch
• 8 years ago - by Anonymous

Software tool for quantifying expression of transcripts using RNA-seq data. Provides fast and bias-aware quantification of transcript expression. Transcriptome-wide quantifier to correct for fragment GC-content bias.

• Resource
• SciCrunch
• 8 years ago - by Anonymous

Software tool to evaluate de novo transcriptome assemblies from RNA-Seq data. Consists of RSEM-EVAL and REF-EVAL packages. RSEM-EVAL is reference-free evaluation method. REF-EVAL is reference based and can be used to compare sets of any kinds of genomic sequences.

• Resource
• SciCrunch
• 8 years ago - by Anonymous

Open source software tool for de novo transcriptome assembly reference free quality analysis. Used to examine assembly in detail and compare it to sequencing reads, reporting quality scores for contigs and assemblies to allow to choose between assemblers and parameters, filter out bad contigs from an assembly, and help decide when to stop trying to improve assembly.

• Resource
• SciCrunch
• 8 years ago - by Anonymous

Interactive web service for analysis of RNA-Seq read count data with principal component analysis (PCA) and agglomerative clustering. Includes features like read count normalization, filtering read counts by gene annotation and visualization options.

• Resource
• SciCrunch
• 8 years ago - by Anonymous

Software tool as end to end software for data acquisition, processing, and result extraction of Arabidopsis thaliana growth. Framework uses photometric stereo based 3D imaging system with computer vision and deep learning for tracking and quantifying both plant growth and movement parameters.

• Resource
• SciCrunch
• 8 years ago - submitted by Gytis Bernotas

Software package for automated functional annotation of LTR retrotransposons for comparative genomics studies. Used to perform de novo functional annotation of LTR retrotransposons from any genome assembly in fasta format.

• Resource
• RRID-Legacy
• 8 years ago - submitted by Julien Bane

Open source software tool for identifying miniature inverted repeat transposable elements in large genomes. Used to process large scale genomes, to find and classify MITEs using an efficient alignment strategy to retrieve nearby inverted repeat sequences.

• Resource
• RRID-Legacy
• 8 years ago - submitted by Julien Bane

Software tool for inference using permutation methods. Requires Matlab or Octave. Can be executed from inside either environment, or directly from the shell and can be called from scripts. For users who are familiar with statistics and willing to use experimental analysis tools.

• Resource
• SciCrunch
• 8 years ago - submitted by Anderson Winkler

Software tool to visualize and explore toxicogenomic fingerprints of three model substances.

• Resource
• SciCrunch
• 8 years ago - submitted by Andreas Schüttler

Software R package to derive toxicogenomic fingerprints from microarray data.

• Resource
• SciCrunch
• 8 years ago - submitted by Andreas Schüttler

Software tool as fast, batch processing feature extraction software for differential analysis that supports data from Agilent GC/MSD, GC/Q-TOF, LC/TOF and LC/Q-TOF instruments. Speeds up differential and flux analysis workflows using intuitive user interface. Used to analyze raw mass spectrometry data, choose peaks.

• Resource
• RRID-Legacy
• 8 years ago - by Anonymous

Software tool as scaffolding algorithm based on maximum weight matching able to produce high quality scaffolds from next generation sequencing data (reads and contigs). Able to handle reads with both short and long insert sizes.

• Resource
• RRID-Legacy
• 8 years ago - submitted by Julien Bane

Software tool for calculating optimal pretension conditions for microvascular or any small tubular tissue research. DMT Normalization Add-On, provided by ADInstruments, is included as part of LabChart Pro or can be purchased separately.

• Resource
• RRID-Legacy
• 8 years ago - by Anonymous

Software tool to operate the EMX series of spectrometers by Bruker. Provides rapid data analysis of 1D and 2D data sets, provides environment for acquisition and processing of CW-EPR and CW-ENDOR spectra with the EMXplus and EMXmicro series of spectrometers.

• Resource
• RRID-Legacy
• 8 years ago - by Anonymous

HomeProductsUpright MicroscopesClinical MicroscopesBX43 The BX41 microscope offers an outstanding range of features, high optical performance and is the ideal platform for digital imaging. This flexible microscope offers various contrast methods and superior optics combined with true-color LED illumination for excellent color rendering. Efficiency is maximized by the ergonomic design, while ease of use is optimized by the light intensity manager, which eliminates manual intensity adjustments for each objective. A wide range of accessories makes it possible to expand the system to cover more techniques, making it adaptable to meet future requirements. The BX41 has a wide-range of applications and is especially suited for clinical research. Specifications unique to this model include a large fine-focus knob that can be moved to the right or left side and a 6v-30w halogen Kohler lamp with pre-set buttons for convenient photo documentation. INSUFFICIENT INFORMATION

• Resource
• RRID-Legacy
• 8 years ago - submitted by Karolina Jabłońska

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on July 18th, 2023. Software that uses long reads to close gaps in the assemblies., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025.

• Resource
• RRID-Legacy
• 8 years ago - submitted by Julien Bane

UK’s national organization for the 3Rs (Replacement, Reduction and Refinement) to advance the 3Rs framework for performing more humane animal research by focusing on scientific impacts and benefits to better reflect contemporary scientific practice and developments.

• Resource
• SciCrunch
• 8 years ago - submitted by Edyta Vieth

Web based tool to help in vivo researchers improve design, conduct, analysis and reporting of animal experiments.Provides automated feedback on proposed design and generates graphical summary that aids communication with colleagues, founders and regulatory authorities. Addresses causes of irreproducibility.

• Resource
• RRID-Legacy
• 8 years ago - by Anonymous

Web based ontology enrichment tool for lipidomic data analysis. Used for lipidomics to search for enriched LION-terms in lipidomic subsets. LION-terms contain detailed lipid classification by LIPIDMAPS, biophysical data, lipid functions and organelle associations. Freely accessible in a platform independent way.

• Resource
• SciCrunch
• 8 years ago - by Anonymous