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ShareScore release 0.9.0
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2 results for “GRCm39”
STAR Reference Files for GRCm39 and GRCh38
<p>This is a <a href="https://github.com/alexdobin/STAR/tree/master">STAR</a> reference index file that uses a recent version (2.7.11b) of STAR to be compatible with STARsolo. The source of these reference files has been taken from the <a href="https://www.10xgenomics.com/support/software/cell-ranger/downloads#reference-downloads">CellRanger pre-built references </a>of GRCm39 (2024-A) and GRCh38 (2024-A), respectively.</p> <p>Although the CellRanger pre-built references already contain STAR reference files, they are NOT compatible with STARsolo or the latest version of STAR. Those who need newer STAR references can use this repository. </p> <p>This repository is intended to facilitate the use of the NovaScope pipeline, but can also be used as a general purpose reference for STAR and STARsolo.</p>
stjude/XenoCP GRCm39 reference
<p>BWA and STAR format reference files for GRCm39 used by XenoCP</p><p>FASTA file from EBI GRCm39 (https://ftp.ebi.ac.uk/pub/databases/gencode/Gencode_mouse/release_M33/GRCm39.genome.fa.gz)</p><p>STAR reference uses Gencode release M33 (https://ftp.ebi.ac.uk/pub/databases/gencode/Gencode_mouse/release_M33/gencode.vM33.annotation.gtf.gz).</p>
ScienceDex guides
Understand access before you commit
These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.