Drosophila melanogaster reference genome, annotation and cDNA (Ensembl BDGP6.32, release 106)
Run Metadata
Workflows
used by workflow
- RNA-seq analysis workflow (HISAT2, RS2) Workflow
- RNA-seq analysis workflow (Hisat2, RS1) Workflow
- RNA-seq analysis workflow (STAR, RS1) Workflow
- RNA-seq analysis workflow (STAR, RS2) Workflow
- RNA-seq analysis workflow (Salmon, RS1) Workflow
- RNA-seq analysis workflow (Salmon, RS2) Workflow
Reproducibility
access and preparation instructions
access statement
- Assembly BDGP6.32 and Ensembl release 106 are pinned from CRC-FONDA/rnaseq-ninon-experiments/droso_RS1_C4_D1_salmon.config. SHA-256 checksums of the exact RUN02 inputs are included with this profile.
- Assembly BDGP6.32 and Ensembl release 106 are pinned from the RS2 workflow configuration. SHA-256 checksums of the exact RUN06 inputs are included with this profile.
- Ensembl Metazoa is the upstream public source. The workflow repositories do not record which Ensembl release was used for the benchmark runs, so the exact reference version cannot currently be pinned. Recording the release number would make these runs reproducible.
input format documentation
storage location
- FONDA Kubernetes persistent storage: /workspace/data/reference (genome FASTA, cDNA FASTA and GTF stored uncompressed)
upstream data source
- https://ftp.ensembl.org/pub/release-106/fasta/drosophila_melanogaster/cdna/Drosophila_melanogaster.BDGP6.32.cdna.all.fa.gz
- https://ftp.ensembl.org/pub/release-106/fasta/drosophila_melanogaster/dna/Drosophila_melanogaster.BDGP6.32.dna.toplevel.fa.gz
- https://ftp.ensembl.org/pub/release-106/gtf/drosophila_melanogaster/Drosophila_melanogaster.BDGP6.32.106.gtf.gz
- https://metazoa.ensembl.org/Drosophila_melanogaster/Info/Index