Curator Dashboard

Software tool as installation helper, perl wrapper and R program Battenberg which detects subclonality and copy number in matched NGS data.

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• SciCrunch
• 8 years ago - submitted by Edyta Vieth

Software tool for analysis of one or more related BAM files of paired end sequencing to determine potential rearrangement breakpoints. Identifies breaks and attempts to assemble rearrangements.

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• SciCrunch
• 8 years ago - submitted by Edyta Vieth

Software tool as cancer genome project insertion or deletion detection workflow for Pindel.

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• SciCrunch
• 8 years ago - submitted by Edyta Vieth

Software tool as single nucleotide variant expectation maximisation based mutation calling algorithm aimed at detecting somatic mutations in paired tumour and normal cancer samples. Algorithms for calling somatic mutations.

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• SciCrunch
• 8 years ago - submitted by Edyta Vieth

Software tool for proteomics data analysis, visualization, and notebook application. Dynamic digital canvas for user driven interrogation of mass spectrometry data. Operating system Unix/Linux, Windows.

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• SciCrunch
• 8 years ago - submitted by Edyta Vieth

Software suite of computational tools implemented in Python to study epigenetic variability, cross cell type plasticity of chromatin states and transcription factors motifs providing mechanistic insights into chromatin structure, cellular identity and gene regulation. Epigenetic variability and transcription factor motifs analysis pipeline.

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• SciCrunch
• 8 years ago - submitted by Edyta Vieth

Software tool for writing scientific workflows of shell commands that depend on each other in Go programming language. Workflow library for agile development of complex and dynamic bioinformatics pipelines. Used in bioinformatics and cheminformatics, but works for any problem involving pipelines of commandline applications.

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• SciCrunch
• 8 years ago - submitted by Samuel Lampa

Software R package for research synthesis taxonomy from applying systematic review approach to assemble and screen literature, to extract data from studies, and to summarize and analyze these data with statistics of meta analysis.

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• RRID-Legacy
• 8 years ago - by Anonymous

Software tool as collection of Multiple Criteria Decision Analysis methods integrated into scientific Python stack.

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• RRID-Legacy
• 8 years ago - by Anonymous

Open source software package for producing forecasts for time series data that has multiple seasonality with linear or non linear growth. Implemented in R or Phyton.

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• RRID-Legacy
• 8 years ago - by Anonymous

Integrated circuit device used as tool for amperometry measurement as replacement of conventional carbon fiber microelectrode. Surface modified structures with SU 8 microwells increases life span of each individual device and achieves single cell measurement efficiency by trapping cells inside microwells.

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• RRID-Legacy
• 8 years ago - by Anonymous

Software package for sweep based data acquisition and analysis of time based waveform data obtained through CED digital analogue converter by Cambridge Electronic Design System Limited. Used for transient capture, patch and voltage clamp, LTP studies, evoked response and TMS.

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• RRID-Legacy
• 8 years ago - by Anonymous

Web tool to explore genotyping metdata by filtering it on basis of variant features, including functional annotations and matching genotype patterns. May be deployed on workstation or as data portal. Allows to feed MongoDB database with VCF, PLINK or HapMap files and provides interface to filter data in real time. Used to export filtered data into formats and features connectivity with online genomic tools and with standalone software such as FlapJack or IGV. Gigwa hosted datasets are interoperable via two standard REST APIs such GA4GH and BrAPI.

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• SciCrunch
• 8 years ago - submitted by Guilhem Sempéré

Machine learning repository for microbiome datasets.

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• RRID-Legacy
• 8 years ago - by Anonymous

Short Amyloid peptide coupled to transportan carrier peptide. A cleavage product of APP. Implicated in Alzheimer's disease.

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• RRID-Legacy
• 8 years ago - submitted by Caghan Kizil

Software tool to assemble bacterial isolate genomes from Illumina paired end reads. Used for isolate data only, primarily small haploid organisms. Supports assemblers like SKESA, Velvet and Megahit.

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• RRID-Legacy
• 8 years ago - submitted by Dan Fornika

Software framework to collect and analyze computational resource usage of workflow runs based on common workflow language CWL. Used to share set of tools packaged in containers. Enables users to choose proper cloud instance for workflow runs based on run time metrics data. Operating system Unix/Linux.

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• SciCrunch
• 8 years ago - by Anonymous

Software package to predict ribosomal RNA genes in full genome sequences by utilising two levels of Hidden Markov Models. Consistent and rapid annotation of ribosomal RNA genes.

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• SciCrunch
• 8 years ago - submitted by Julien Bane

Project between Inria, Inserm, CNRS, and University of Rennes for biomedical image analysis for understanding neurological disease. Used to diagnose, monitor and deliver treatment for mental, neurological and substance use disorders by establishing multidisciplinary team between information sciences and medicine in medical imaging, neuroinformatics and population cohorts.

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• SciCrunch
• 8 years ago - submitted by Edyta Vieth

Source code used in the analysis of GC MS data from rice samples. Workflow for statistical analysis of GC MS data from field grown rice exposed to combined drought and heat stress.

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• SciCrunch
• 8 years ago - submitted by Lovely Mae Lawas