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Add h5ad test data #1379

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Nov 9, 2024
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6 changes: 5 additions & 1 deletion README.md
Original file line number Diff line number Diff line change
Expand Up @@ -527,7 +527,7 @@ The folder is structured in the following way: Any nonspecific-pangenome file is
- vcf:
- NA03697B2_new.pbmm2.repeats.vcf.gz: VCF file associated with the NA03697B2_downsampled.pbmm2.repeats.bam BAM file, generated from PacBio PBSV (version 2.9.0 - default settings)
- NA03697B2_downsampled.pbmm2.repeats.vcf.gz: Index for NA03697B2_downsampled.pbmm2.repeats.vcf.gz
- popgen:
- popgen:
- plink_simulated.bed: case-control simulated variants dataset in PLINK binary format
- plink_simulated.fam: case-control simulated variants dataset in PLINK binary format
- plink_simulated.bim: case-control simulated variants dataset in PLINK binary format
Expand Down Expand Up @@ -570,6 +570,10 @@ The folder is structured in the following way: Any nonspecific-pangenome file is
- test.cram: The converted CRAM from the BAM file
- test.cram.crai: The index of the CRAM file
- test.bed: A BED file containing only the regions from chr11

- scrnaseq:
- h5ad:
- pbmc1k.h5ad: Downloaded with `scanpy.datasets.pbmc3k()` and subsampled to 1,000 cells and genes. `adata.obs` contains `batch`column with batches '1', '2', and '3'

- mus_musculus
- mageck
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