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0
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199
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Comment: Comment: How to include the lane index in STARsolo count matrix barcodes.tsv?
10 hours ago by mk ▴ 300
1
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4
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199
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How to include the lane index in STARsolo count matrix barcodes.tsv?
10x starsolo singlecell star alignment
updated 9 hours ago by 14k • written 1 day ago by ▴ 300
0
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2
replies
311
views
How to perform corrected Cell Barcode/UMI calling with an externally sorted BAM?
bam alignment starsolo star
updated 6 days ago by ★ 6.9k • written 6 days ago by ▴ 300
0
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1
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520
views
Comment: Comment: Where does cellranger log its estimates for the input to DETECT_COUNT_CHEMISTRY?
4 months ago by mk ▴ 300
0
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3
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520
views
Where does cellranger log its estimates for the input to DETECT_COUNT_CHEMISTRY?
cellranger sequencing single-cell
updated 4 months ago by 85k • written 4 months ago by ▴ 300
0
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2
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1.1k
views
how to get sequences by location when pyfaidx.Fasta(read_long_names=True) creates keys from FastaRecord (dmel r6 genome build)?
selene_sdk pyfaidx fasta python flybase
updated 11 months ago by ★ 2.1k • written 11 months ago by ▴ 300
0
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0
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1.1k
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Answer: Answer: how to get sequences by location when pyfaidx.Fasta(read_long_names=True) create
11 months ago by mk ▴ 300
0
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0
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486
views
use GEOparse to download series supplemental files?
gse geoparse python geoquery geo
11 months ago by mk ▴ 300
3
votes
2
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739
views
use bioservices.UniProt (python) to map uniprot accession to [multiple] ensembl ids
bioservices ensembl python uniprot
12 months ago by mk ▴ 300
2
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0
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739
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Answer: Answer: use bioservices.UniProt (python) to map uniprot accession to [multiple] ensembl
12 months ago by mk ▴ 300
1
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0
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3.3k
views
Answer: Answer: GeneActivity without Fragments file in Seurat for Integrating scRNA-seq and scAT
19 months ago by mk ▴ 300
0
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0
replies
365
views
pathwaycommons SPARQL endpoint down?
pathway-commons
updated 17 months ago by 44k • written 22 months ago by ▴ 300
0
votes
1
reply
672
views
Any way to search [GEO, etc] by library prep protocol (looking for published single-cell multi-ome data)?
single-cell atac-seq rna-seq multiomics
updated 2.0 years ago by 147k • written 2.0 years ago by ▴ 300
0
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0
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699
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Comment: Comment: does bioconductor/bioconductor_docker:RELEASE_X_Y install CRAN packages from a f
2.8 years ago by mk ▴ 300
2
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2
replies
699
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does bioconductor/bioconductor_docker:RELEASE_X_Y install CRAN packages from a fixed snapshot?
R Bioconductor docker
2.8 years ago by mk ▴ 300
0
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1
reply
5.6k
views
Comment: Comment: seurat `<obj>@assays$RNA@counts` vs `<obj>@assays$RNA@data`?
3.3 years ago by mk ▴ 300
0
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0
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3.8k
views
Comment: Comment: how to Seurat::RunUMAP() but run reduction="pca" on subset of features?
3.3 years ago by mk ▴ 300
0
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0
replies
3.8k
views
Comment: Comment: how to Seurat::RunUMAP() but run reduction="pca" on subset of features?
3.3 years ago by mk ▴ 300
1
vote
4
replies
3.8k
views
how to Seurat::RunUMAP() but run reduction="pca" on subset of features?
seurat pca umap
3.3 years ago by mk ▴ 300
0
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1
reply
5.6k
views
Comment: Comment: seurat `<obj>@assays$RNA@counts` vs `<obj>@assays$RNA@data`?
3.3 years ago by mk ▴ 300
1
vote
5
replies
5.6k
views
seurat `<obj>@assays$RNA@counts` vs `<obj>@assays$RNA@data`?
seurat
updated 3.3 years ago by 13k • written 3.3 years ago by ▴ 300
1
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0
replies
1.7k
views
Comment: Comment: AnnotationHub::mapIds() cannot find existing ENSG (GEO supplemental data cross-r
3.3 years ago by mk ▴ 300
1
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0
replies
1.7k
views
Comment: Comment: AnnotationHub::mapIds() cannot find existing ENSG (GEO supplemental data cross-r
3.3 years ago by mk ▴ 300
5
votes
3
replies
1.7k
views
AnnotationHub::mapIds() cannot find existing ENSG (GEO supplemental data cross-referenced with ensembl.org)
ensg annotationhub mapping
3.3 years ago by mk ▴ 300
0
votes
0
replies
960
views
where to get PBMC (68k) labels?
pbmc single-cell 10x
3.7 years ago by mk ▴ 300
0
votes
0
replies
740
views
database of ligand->receptor->TF(or transcriptional target)
database signaling
updated 4.0 years ago by 20 • written 4.2 years ago by ▴ 300
0
votes
0
replies
1.1k
views
Published data sets using 10x Feature Barcoding?
10x single-cell 10x genomics feature barcoding
4.0 years ago by mk ▴ 300
1
vote
0
replies
4.3k
views
Comment: C: what is the deal with bioconda?
4.1 years ago by mk ▴ 300
8
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4
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4.3k
views
what is the deal with bioconda?
conda bioconda
updated 3.5 years ago by ▴ 140 • written 4.1 years ago by ▴ 300
0
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0
replies
1.2k
views
Comment: C: content negotiation for the ontobee sparql endpoint
updated 4.1 years ago by 44k • written 4.1 years ago by ▴ 300
0
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2
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1.2k
views
Comment: C: content negotiation for the ontobee sparql endpoint
4.1 years ago by mk ▴ 300
1
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1
reply
1.2k
views
Comment: C: content negotiation for the ontobee sparql endpoint
4.1 years ago by mk ▴ 300
4
votes
6
replies
1.2k
views
content negotiation for the ontobee sparql endpoint
ontobee sparql obofoundry
4.1 years ago by mk ▴ 300
3
votes
2
replies
1.2k
views
error when trying to perform a federated query in Pathway Commons SPARQL endpoint
uniprot pathway-commons rdf sparql biopax
updated 17 months ago by 44k • written 4.2 years ago by ▴ 300
0
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0
replies
1.2k
views
Comment: C: what is the uniprot RDF entity for "uniprot accession"?
4.2 years ago by mk ▴ 300
3
votes
2
replies
1.2k
views
what is the uniprot RDF entity for "uniprot accession"?
uniprot rdf
updated 4.2 years ago by ▴ 760 • written 4.2 years ago by ▴ 300
1
vote
2
replies
4.2k
views
Creation of cellDataSet in Monocle 2 wants undocumented AnnotatedDataFrame: assayData
monocle cellDataSet ExpressionSet
updated 4.2 years ago by • 0 • written 6.8 years ago by ▴ 300
1
vote
0
replies
995
views
Answer: A: Are federated SPARQL queries pointless with the Pathway Commons BioPAX represent
4.2 years ago by mk ▴ 300
1
vote
1
reply
995
views
Are federated SPARQL queries pointless with the Pathway Commons BioPAX representation?
ontology BioPAX SPARQL wikipathways reactome
4.2 years ago by mk ▴ 300
0
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0
replies
1.0k
views
Comment: C: censoring time for ICGC records with no followup or date of death?
4.4 years ago by mk ▴ 300
1
vote
2
replies
1.0k
views
censoring time for ICGC records with no followup or date of death?
icgc survival cancer
4.4 years ago by mk ▴ 300
1
vote
0
replies
990
views
Comment: C: ICGC mRNA sequencing data: where is the documentation on analysis_id?
4.4 years ago by mk ▴ 300
0
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0
replies
1.1k
views
Comment: C: Entrez e-utils reference for ensembl ids
4.4 years ago by mk ▴ 300
2
votes
4
replies
990
views
ICGC mRNA sequencing data: where is the documentation on analysis_id?
icgc RNA-Seq
4.4 years ago by mk ▴ 300
2
votes
3
replies
1.1k
views
Entrez e-utils reference for ensembl ids
ensembl entrez e-utils gene
updated 4.4 years ago by 147k • written 4.4 years ago by ▴ 300
0
votes
1
reply
1.3k
views
Comment: C: How long does a dbGaP controlled data access request take (US extramural)?
4.6 years ago by mk ▴ 300
2
votes
4
replies
1.3k
views
How long does a dbGaP controlled data access request take (US extramural)?
TCGA
4.6 years ago by mk ▴ 300
9
votes
8
replies
2.0k
views
GenomicDataCommons request timeouts cases() %>% ... %>% results_all()
GenomicDataCommons bioconductor R http
updated 4.8 years ago by 20 • written 5.8 years ago by ▴ 300
0
votes
0
replies
1.3k
views
scater/scran workflow for batches recompute size factors after MNN?
scater scran r bioconductor
5.6 years ago by mk ▴ 300
40
votes
6
replies
16k
views
7 follow
Mapping Ensembl Gene IDs with dot suffix
ensembl gene biomart bioconductor R
updated 16 months ago by 12k • written 6.7 years ago by ▴ 300
70 results • Page 1 of 2
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