Results for “labarchives”

5 skills

labarchive-integration

Access and manage LabArchives electronic lab notebooks programmatically via REST API. Create entries, upload attachments, backup notebooks, generate reports, and integrate with Protocols.io, Jupyter, REDCap, and other scientific tools.

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Query experiments, protocols, resources, and inventory in the Labstep electronic lab notebook using the labstepPy API.

Search, browse, and retrieve scientific protocols from protocols.io via REST API, including private protocols with client token authentication.

Runs NCBI BLAST+ 2.17.0 sequence searches from the command line: makeblastdb (with -parse_seqids), blastn/blastp/blastx/tblastn with tabular -outfmt 6/7 for parsing, correct -task choice (megablast vs blastn vs blastn-short), -taxids/-negative_taxids taxonomic scoping, and -mt_mode multithreading; plus a DIAMOND blastp --ultra-sensitive path for large protein searches. Warns that -max_target_seqs is a heuristic keep-count, not a top-N best-hits filter. Use when the user wants command-line BLAST, makeblastdb, a local BLAST database, blastn/blastp/blastx/tblastn searches, or DIAMOND protein search. For the Bio.Blast web NCBIWWW API prefer alterlab-biopython; for quick one-liner database lookups prefer alterlab-gget. Part of the AlterLab Academic Skills suite.

011-api-1e4e9944

Queries the Metabolomics Workbench REST API to retrieve metabolite, study, and RefMet data in JSON or text formats.