matrulda
[She/Her] Bioinformatician/System developer at NGI Uppsala, SciLifeLab.
Uppsala University, SciLifeLab Genomics, NGI UppsalaUppsala, Sweden
Pinned Repositories
arteria-bcl2fastq
Provides a simple http-interface for Illumina bcl2fastq
arteria-runfolder
A webservice used to monitor runfolders from Illumina instruments and check what state they are in (e.g. ready to process or not).
arteria-bcl2fastq
Provides a simple http-interface for Illumina bcl2fastq
arteria-checksum
Service for checking md5sums
arteria-core
The arteria python module is a library of helper classes for the Arteria project.
gimme-food
Make a shopping list from your favorite recipes
spotify_playground
Playing around with the Spotify API
validate_bamtofastq
Simple nextflow workflow to compare original fastqs with fastqs generated by https://github.com/qbic-pipelines/bamtofastq
checkQC
CheckQC inspects the content of an Illumina runfolder and determines if it passes a set of quality criteria
seqreports
This is a Nextflow pipeline for generating sequencing reports for the SNP&Seq Technology platform, NGI Uppsala, SciLifelab Genomics.
matrulda's Repositories
matrulda/gimme-food
Make a shopping list from your favorite recipes
matrulda/spotify_playground
Playing around with the Spotify API
matrulda/validate_bamtofastq
Simple nextflow workflow to compare original fastqs with fastqs generated by https://github.com/qbic-pipelines/bamtofastq
matrulda/arteria-checksum
Service for checking md5sums
matrulda/arteria-delivery
Micro-service to carry out deliveries on Uppmax
matrulda/arteria-packs
StackStorm packs to automate sequencing center operations
matrulda/arteria-runfolder
A webservice used to monitor runfolders from Illumina instruments and check what state they are in (e.g. ready to process or not).
matrulda/bioconda-recipes
Conda recipes for the bioconda channel.
matrulda/charon
Database for IGN projects and samples, with RESTful interface. Built on top of Tornado and CouchDB.
matrulda/checkQC
checkqc inspects the content of a runfolder and determines if it passes a set of quality criteria
matrulda/demultiplex
Demultiplexing pipeline for sequencing data
matrulda/irma-provision
Ansible playbooks for provisioning NGI pipeline and related sw
matrulda/irma-scripts
Stand-alone scripts deployed to Irma
matrulda/matrulda
matrulda/miarka-provision
Ansible playbooks for provisioning NGI cluster Miarka
matrulda/modules
Repository to host tool-specific module files for the Nextflow DSL2 community!
matrulda/MultiQC
Aggregate results from bioinformatics analyses across many samples into a single report.
matrulda/projman_filler
Application used to populate ProjMan with runfolder data
matrulda/projman_filler_old
Application used to populate ProjMan with runfolder data
matrulda/rnaseq
Nextflow RNA-Seq Best Practice analysis pipeline, used at the SciLifeLab National Genomics Infrastructure.
matrulda/sarek
Analysis pipeline to detect germline or somatic variants from WGS / targeted sequencing
matrulda/seqinspector
(hopefully nf-core) pipeline to inspect your sequences
matrulda/seqreports
In this repository we will gather useful scripts that can be used in the process of developing new sequencing report at the SNP&SEQ Technology platform
matrulda/sequencing-report-service
Service producing and displaying sequencing reports.
matrulda/sis_style_checksums_nextflow
A Nextflow pipeline to generate sisyphus-style checksums
matrulda/snpseq-archive-upload
Rest service for handling archive uploads
matrulda/snpseq-archive-verify
REST service for verifying uploaded archives
matrulda/st2-docker
StackStorm docker-compose deployment
matrulda/test-datasets
Test data to be used for automated testing with the nf-core pipelines
matrulda/tools
Python package with helper tools for the nf-core community.