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• Journal:Security architecture and protocol for trust verifications regarding the integrity of files stored in cloud services
  ...chitecture and protocol for trust verifications regarding the integrity of files stored in cloud services ...ef name="MellTheNIST09">{{cite web |url=https://www.nist.gov/sites/default/files/documents/itl/cloud/cloud-def-v15.pdf |format=PDF |title=The NIST Definitio
  93 KB (14,047 words) - 00:38, 27 March 2019
• Journal:NG6: Integrated next generation sequencing storage and processing environment
  ...sts. Once the sequences have been produced, the user can transfer its data files, build and run workflows to process them. ...ecured user-friendly interface to visualize and download the raw sequences files and the analysis results.
  28 KB (4,046 words) - 16:59, 29 March 2024
• LII:Web Application Security Guide/File upload vulnerabilities
  ...documents), ensure that the uploaded files cannot be interpreted as script files by the web server. Otherwise, the attacker may upload a script in your appl .... Some broken browsers (notably Internet Explorer) ignore the MIME type of files in some cases and detect the file type based on the file content.
  6 KB (917 words) - 22:10, 10 August 2016
• Journal:SUSHI: An exquisite recipe for fully documented, reproducible and reusable NGS data analysis
  ...bioinformaticians with the tasks of combining the tools, managing the data files and meta-information, documenting the analysis, and ensuring reproducibilit ...e store meta-information on the experimental data together with the result files, so that those can be interpreted and further analyzed by other tools indep
  52 KB (7,043 words) - 18:19, 6 July 2016
• Journal:Integrated systems for NGS data management and analysis: Open issues and available solutions
  ...: this part of the analysis is strongly data-type-dependent, outputs small files but it may involve multiple attempts using different tools (whose parameter ...ribution of the final data to the user (typically unaligned reads as FASTQ files).
  43 KB (6,041 words) - 22:49, 1 April 2024
• LII:Web Application Security Guide/Checklist
  * Avoid having scripts read and pass through files if possible. * If you read and deliver files using user-supplied file names, thoroughly validate the file names to avoid
  13 KB (2,016 words) - 22:06, 10 August 2016
• LII:The Application of Informatics to Scientific Work: Laboratory Informatics for Newbies
  ...ple if something is missing. This includes checking to see if the graphics files are available, in the correct format, etc. The priority of the work is dete ...operation, and an administrator logs in work orders, notes the location of files that will be used on those orders, and does the final checkout of work, shi
  62 KB (9,730 words) - 16:23, 29 March 2024
• Journal:Epidemiological data challenges: Planning for a more robust future through data standards
  ...ogramming languages require no third-party libraries to read and write CSV files. ...le epidemiological case count data in CSV format. CSV files are plain text files that allow tabular data to be laid out as rows separated by newlines and co
  58 KB (8,162 words) - 16:02, 28 April 2020
• Journal:From months to minutes: Creating Hyperion, a novel data management system expediting data insights for oncology research and patient care
  All data are in the manuscript and/or supporting information files.
  44 KB (6,060 words) - 01:03, 22 February 2023
• Journal:Generalized procedure for screening free software and open-source software applications/In-depth evaluation
  ...og in. System doesn't support even a minimal audit trail. Any intermediate files are easily accessible and modifiable outside of the system.
  60 KB (9,447 words) - 16:18, 19 January 2016
• LII:Web Application Security Guide/File inclusion and disclosure
  ....g. in menu systems or download scripts), attackers may be able to request files that they are not supposed to. If user-supplied names are used for inclusio * Avoid having scripts read and pass through files if possible.
  3 KB (456 words) - 21:55, 10 August 2016
• Journal:Launching genomics into the cloud: Deployment of Mercury, a next generation sequence analysis pipeline
  ...tlas-SNP and Atlas-indel are used to identify variants and produce variant files (VCF). 5) Annotation adds biological and functional information to the vari ...d on a local terminal. For example, one may provide a list of sample FASTQ files and sample meta-data locations to Mercury, at which point Mercury uploads t
  66 KB (8,669 words) - 21:43, 19 January 2016
• Journal:A model for design and implementation of a laboratory information management system specific to molecular pathology laboratory operations
  ...sion maps, diagrams, and flowcharts), spreadsheets, native-instrument data files, laboratory standard operating procedures, and test validation plans. ...rics parsed directly from NanoDrop (Thermo Fisher Scientific, Waltham, MA) files into LIMS-based analytical workflows
  77 KB (9,756 words) - 22:16, 4 April 2024
• LII:A Science Student's Guide to Laboratory Informatics
  *Lab personnel records: The qualifications, personnel files (along with human resources), vacation schedules, education/training, etc. ...st two ways: the creation of the SDMS and IDS. From the standpoint of data files, both have some elements in common, though IDSs are more limited.
  73 KB (10,823 words) - 16:17, 29 March 2024
• Journal:Selecting a laboratory information management system for biorepositories in low- and middle-income countries: The H3Africa experience and lessons learned
  ...ts in spreadsheet style; Result import from a variety of sources including files and instruments; Viewing of results previously entered using same selection ...adding-left:10px; padding-right:10px;"|• Does system allow storage of BLOB files, for example, pictures and documents (Consent forms) associated with a samp
  26 KB (3,552 words) - 02:07, 28 March 2024
• LabKey Server
  ...ata processing pipeline allows the upload and processing of the large data files common to biomedical research.<ref name="LK_Docs"/> ...3-upload-and-search-files Unlocking spreadsheet data #3: Upload and search files]
  22 KB (2,912 words) - 20:54, 31 May 2024
• Journal:MendeLIMS: A web-based laboratory information management system for clinical genome sequencing
  ...library/sample nomenclature in the analysis directory and file names, the files are easily cross-referenced between MendeLIMS and the storage cluster. ...le="background-color:white; padding-left:10px; padding-right:10px;"|Attach files to samples/libraries/sequencing runs
  35 KB (4,731 words) - 18:03, 12 April 2024
• Journal:A pocket guide to electronic laboratory notebooks in the academic life sciences
  ...xture of (often repetitive) protocols, digital images, links to large data files, etc. In addition, the recent realization that there is a ‘reproducibilit ...le="background-color:white; padding-left:10px; padding-right:10px;"|Attach files to notes
  43 KB (6,436 words) - 19:05, 12 April 2024
• Journal:Registered data-centered lab management system based on data ownership security architecture
  ...w; usually it is not suitable for the encryption of a large number of data files.
  61 KB (8,423 words) - 21:32, 31 July 2023
• Journal:The FAIR Guiding Principles for scientific data management and stewardship
  ...DB files or space science Space Physics Archive Search and Extract (SPASE) files, and data that is machine-actionable exclusively through the utilization of ...data, and download the data files, using a token to grant access when data files are restricted ("A").
  49 KB (7,038 words) - 16:24, 29 April 2024

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