BioFSharp.IO.INSDC 0.2.1

.NET Standard 2.0 This package targets .NET Standard 2.0. The package is compatible with this framework or higher.
There is a newer version of this package available.
See the version list below for details. 
dotnet add package BioFSharp.IO.INSDC --version 0.2.1
                    


                    

                
NuGet\Install-Package BioFSharp.IO.INSDC -Version 0.2.1
This command is intended to be used within the Package Manager Console in Visual Studio, as it uses the NuGet module's version of Install-Package. 
<PackageReference Include="BioFSharp.IO.INSDC" Version="0.2.1" />
For projects that support PackageReference, copy this XML node into the project file to reference the package. 
<PackageVersion Include="BioFSharp.IO.INSDC" Version="0.2.1" />
                    


                            Directory.Packages.props
                        

                    

                
<PackageReference Include="BioFSharp.IO.INSDC" />
                    


                            Project file
For projects that support Central Package Management (CPM), copy this XML node into the solution Directory.Packages.props file to version the package. 
paket add BioFSharp.IO.INSDC --version 0.2.1
                    


                    

                
#r "nuget: BioFSharp.IO.INSDC, 0.2.1"
#r directive can be used in F# Interactive and Polyglot Notebooks. Copy this into the interactive tool or source code of the script to reference the package. 
#:package BioFSharp.IO.INSDC@0.2.1
#:package directive can be used in C# file-based apps starting in .NET 10 preview 4. Copy this into a .cs file before any lines of code to reference the package. 
#addin nuget:?package=BioFSharp.IO.INSDC&version=0.2.1
                    


                            Install as a Cake Addin
                        

                    

                
#tool nuget:?package=BioFSharp.IO.INSDC&version=0.2.1
                    


                            Install as a Cake Tool

BioFSharp.IO.INSDC

F# reading and writing for INSDC (International Nucleotide Sequence Database Collaboration) sequence-database records — part of the BioFSharp.INSDC suite and a direct companion to BioFSharp.

Each INSDC entity — BioProject, Study, Sample, Experiment, Run, Analysis, Submission, and Receipt — is exposed as an F# module that parses the record from a file or string and serializes it back to standard INSDC XML, on top of the generated BioFSharp.FileFormats.INSDC type model.

Beyond plain IO, the package can report the precise XML location (XPath / W3C XPointer) of any field on a parsed value, and can decompile a record into ontology term/value pairs — pairing every leaf value with a structural-ontology term whose name mirrors the record's XML structure. This location-and-meaning layer is what the mapping and store packages build on to annotate and normalize records.

Part of BioFSharp.INSDC. Released under the MIT license.

Product Compatible and additional computed target framework versions.
.NET net5.0 was computed.  net5.0-windows was computed.  net6.0 was computed.  net6.0-android was computed.  net6.0-ios was computed.  net6.0-maccatalyst was computed.  net6.0-macos was computed.  net6.0-tvos was computed.  net6.0-windows was computed.  net7.0 was computed.  net7.0-android was computed.  net7.0-ios was computed.  net7.0-maccatalyst was computed.  net7.0-macos was computed.  net7.0-tvos was computed.  net7.0-windows was computed.  net8.0 was computed.  net8.0-android was computed.  net8.0-browser was computed.  net8.0-ios was computed.  net8.0-maccatalyst was computed.  net8.0-macos was computed.  net8.0-tvos was computed.  net8.0-windows was computed.  net9.0 was computed.  net9.0-android was computed.  net9.0-browser was computed.  net9.0-ios was computed.  net9.0-maccatalyst was computed.  net9.0-macos was computed.  net9.0-tvos was computed.  net9.0-windows was computed.  net10.0 was computed.  net10.0-android was computed.  net10.0-browser was computed.  net10.0-ios was computed.  net10.0-maccatalyst was computed.  net10.0-macos was computed.  net10.0-tvos was computed.  net10.0-windows was computed. 
.NET Core netcoreapp2.0 was computed.  netcoreapp2.1 was computed.  netcoreapp2.2 was computed.  netcoreapp3.0 was computed.  netcoreapp3.1 was computed. 
.NET Standard netstandard2.0 is compatible.  netstandard2.1 was computed. 
.NET Framework net461 was computed.  net462 was computed.  net463 was computed.  net47 was computed.  net471 was computed.  net472 was computed.  net48 was computed.  net481 was computed. 
MonoAndroid monoandroid was computed. 
MonoMac monomac was computed. 
MonoTouch monotouch was computed. 
Tizen tizen40 was computed.  tizen60 was computed. 
Xamarin.iOS xamarinios was computed. 
Xamarin.Mac xamarinmac was computed. 
Xamarin.TVOS xamarintvos was computed. 
Xamarin.WatchOS xamarinwatchos was computed. 
Compatible target framework(s)
Included target framework(s) (in package)
Learn more about Target Frameworks and .NET Standard.

NuGet packages (3)

Showing the top 3 NuGet packages that depend on BioFSharp.IO.INSDC:

Package Downloads
BioFSharp.INSDC.SQLite

SQLite-backed store for INSDC (International Nucleotide Sequence Database Collaboration) records — deconstructs BioProject, Study, BioSample, Experiment, and Run values into a normalized schema and reconstructs them on read.
BioFSharp.INSDC.Crawler

Crawls INSDC (International Nucleotide Sequence Database Collaboration) records from ENA — enumerates every run, experiment, sample, and study connected to a project accession and persists them via the BioFSharp.INSDC.SQLite store.
BioFSharp.INSDC.ArcIR

INSDC-specific F1 adapter that maps BioProject, Study, Sample, Experiment, Run, Analysis, Submission, and Receipt records into the target-neutral BioFSharp.ArcIR graph.

GitHub repositories

This package is not used by any popular GitHub repositories.

Version Downloads Last Updated
0.3.0 176 8/28/2026
0.2.1 192 7/9/2026
0.2.0 195 7/9/2026
0.1.0 75 5/21/2026

Crawler fixes surfaced by large-scale crawls (incl. ENA umbrella projects such as `PRJNA9506`, which fans out to thousands of child projects).
- **BioFSharp.INSDC.Crawler** — a project/study with no sequencing runs now persists its own record: discovery is run-driven, so a childless root previously discovered nothing (not even itself). `Discovery.withRoot` seeds the root into the bucket its accession prefix implies (`PRJ…` → BioProject, `SRP`/`ERP`/`DRP…` → Study).
- **BioFSharp.INSDC.Crawler** — new `Started` crawl event, emitted before discovery, so the first log line identifies the root accession rather than only learning it at `done —`.
- **BioFSharp.INSDC.SQLite / Crawler** — bulk insert: `Sql.withTransaction` is now reentrant (a nested call joins the active transaction rather than throwing, since SQLite has no nested transactions), letting the crawler persist an entire crawl in a single transaction instead of one commit per record — the difference between a trickle and a bulk load on crawls of hundreds of thousands of runs.