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3
votes
3
replies
342
views
How to format "I" and "D" in vcf version 4.2 for liftover analysis in GATK
gatk vcf liftover
updated 18 days ago by 44k • written 18 days ago by ▴ 260
0
votes
0
replies
147
views
Xenium multi sample data
batch annotation cell Xenium effect
20 days ago by Omics data mining ▴ 260
0
votes
0
replies
426
views
cnetplot enrichment graph to cytoscape
clusterprofiler cnetplot enrichplot
12 months ago by Omics data mining ▴ 260
0
votes
1
reply
677
views
Comment: Comment: Spatial transcriptome analysis
12 months ago by Omics data mining ▴ 260
0
votes
0
replies
1.7k
views
from seurat to scanpy data conversion and re-scaling
transctiptome eurat scanpy conversion spatial
12 months ago by Omics data mining ▴ 260
1
vote
1
reply
1000
views
Right assay and slot for the extraction of normalized data after "sct normalization" and "anchor based integration"
single normalization integration cell sct anchor seurat based
updated 13 months ago by ★ 1.8k • written 13 months ago by ▴ 260
0
votes
1
reply
493
views
pipeline for correlation of RNASeq and Methylation data
rnaseq methylation correlation normalization data
updated 13 months ago by ★ 2.9k • written 13 months ago by ▴ 260
0
votes
1
reply
612
views
Customizable pvalue scales in clusterprofiler
clusterprofiler
updated 13 months ago by 13k • written 13 months ago by ▴ 260
0
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0
replies
953
views
Comment: Comment: clusterprofiler dotplot facet_grid plot based on ONTOLOGY
13 months ago by Omics data mining ▴ 260
2
votes
2
replies
953
views
clusterprofiler dotplot facet_grid plot based on ONTOLOGY
dotplot clusterprofiler facet_grid
13 months ago by Omics data mining ▴ 260
0
votes
0
replies
347
views
normalization and integration of two independent single cell cohorts
single-cell batch-effect normalization
updated 13 months ago by 44k • written 13 months ago by ▴ 260
0
votes
1
reply
1.2k
views
normalized score for SpatialFeaturePlot
Spatial Transcriptome normalization integration Seurat
updated 14 months ago by ★ 1.8k • written 14 months ago by ▴ 260
2
votes
1
reply
3.3k
views
Comment: Comment: How to include spatial coordinate data into anndata within scanpy
14 months ago by Omics data mining ▴ 260
0
votes
0
replies
674
views
Comment: Comment: Visualization of Enrichment score for spatial 10x visium samples
15 months ago by Omics data mining ▴ 260
1
vote
2
replies
674
views
Visualization of Enrichment score for spatial 10x visium samples
visium transctiptome 10x enrichment scores spatial
15 months ago by Omics data mining ▴ 260
1
vote
2
replies
670
views
deconvolution of spatial transcriptome
deconvolution spatial transcriptome
updated 16 months ago by ★ 3.9k • written 16 months ago by ▴ 260
0
votes
1
reply
1.8k
views
change color and scale in SpatialFeaturePlot
clustering Seurat spatial-transcriptome
updated 16 months ago by 44k • written 16 months ago by ▴ 260
0
votes
0
replies
1.0k
views
error plotting spatial data in scanpy
scanpy spatial-transcriptome
updated 16 months ago by 44k • written 16 months ago by ▴ 260
2
votes
0
replies
577
views
Input at BINDetect step (for TOBIAS pipeline) with multiple files
differential ATAC-Seq tobias motifs
16 months ago by Omics data mining ▴ 260
0
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0
replies
3.3k
views
Comment: Comment: error in pipeline installation dependent on numpy version 1.18.5
16 months ago by Omics data mining ▴ 260
0
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1
reply
3.3k
views
Comment: Comment: error in pipeline installation dependent on numpy version 1.18.5
16 months ago by Omics data mining ▴ 260
0
votes
1
reply
3.3k
views
Comment: Comment: error in pipeline installation dependent on numpy version 1.18.5
16 months ago by Omics data mining ▴ 260
1
vote
6
replies
3.3k
views
error in pipeline installation dependent on numpy version 1.18.5
cnn numpy imaging python
16 months ago by Omics data mining ▴ 260
3
votes
8
replies
6.4k
views
bait interval list for picard collecthsmetrices
picard alignment exome
13 months ago by Omics data mining ▴ 260
1
vote
1
reply
527
views
DESeq2 with multiple conditional data
multi differential DESeq2 genes factor
updated 17 months ago by 13k • written 17 months ago by ▴ 260
8
votes
6
replies
3.3k
views
How to include spatial coordinate data into anndata within scanpy
scanpy visium transcriptome spatial 10X
updated 4 months ago by • 0 • written 19 months ago by ▴ 260
1
vote
1
reply
540
views
Batch effect of sequencing data that were sequenced in different locations
effect batch DESeq2
updated 19 months ago by 82k • written 19 months ago by ▴ 260
0
votes
0
replies
442
views
Error plotting the markers in sc.pl.rank_genes_groups_dotplot
scanpy trasncriptome seurat spatial
19 months ago by Omics data mining ▴ 260
0
votes
1
reply
496
views
identification of overlapped, proximal and distal gene for peak regions
chip idenfication peak seq gene
updated 20 months ago by ▴ 410 • written 20 months ago by ▴ 260
0
votes
0
replies
1.1k
views
Comment: Comment: nested elements in bed file using awk
20 months ago by Omics data mining ▴ 260
0
votes
0
replies
583
views
Comment: Comment: cluster identification and DEGs in single cell data
20 months ago by Omics data mining ▴ 260
1
vote
2
replies
583
views
cluster identification and DEGs in single cell data
deg cluster seurat analysis
20 months ago by Omics data mining ▴ 260
0
votes
2
replies
1.1k
views
Comment: Comment: nested elements in bed file using awk
20 months ago by Omics data mining ▴ 260
3
votes
6
replies
1.1k
views
nested elements in bed file using awk
coordinates bedops genome awk
20 months ago by Omics data mining ▴ 260
0
votes
1
reply
957
views
Comment: Comment: MOTIF IDENTIFICATION IN RNA SEQUENCES
20 months ago by Omics data mining ▴ 260
4
votes
1
reply
1.1k
views
SCTransform in single cell
SCTransform seurat
updated 20 months ago by 142k • written 20 months ago by ▴ 260
0
votes
0
replies
658
views
Comment: Comment: overlap statistics among multiple bed files
20 months ago by Omics data mining ▴ 260
0
votes
0
replies
515
views
Comment: Comment: exportFASTA not working
20 months ago by Omics data mining ▴ 260
0
votes
1
reply
658
views
Comment: Comment: overlap statistics among multiple bed files
20 months ago by Omics data mining ▴ 260
1
vote
4
replies
658
views
overlap statistics among multiple bed files
bedtools
updated 11 months ago by 44k • written 20 months ago by ▴ 260
0
votes
2
replies
515
views
exportFASTA not working
exportFASTA biomart getSeq
20 months ago by Omics data mining ▴ 260
0
votes
2
replies
546
views
Filteration of uniquely mapped reads
samtools bam
updated 11 months ago by 44k • written 20 months ago by ▴ 260
1
vote
0
replies
652
views
Comment: Comment: Identifying DEG's on Integrated samples
20 months ago by Omics data mining ▴ 260
1
vote
2
replies
957
views
Comment: Comment: MOTIF IDENTIFICATION IN RNA SEQUENCES
20 months ago by Omics data mining ▴ 260
0
votes
0
replies
1.7k
views
Comment: Comment: conda env in snakemake
20 months ago by Omics data mining ▴ 260
0
votes
1
reply
1.7k
views
Comment: Comment: conda env in snakemake
21 months ago by Omics data mining ▴ 260
0
votes
4
replies
1.7k
views
conda env in snakemake
snakemake conda
20 months ago by Omics data mining ▴ 260
0
votes
1
reply
2.9k
views
SCTransform + Harmony in Seurat for batch correction
batch transcriptome spatial correction Seurat
updated 2.0 years ago by ▴ 10 • written 2.2 years ago by ▴ 260
0
votes
0
replies
582
views
Comment: Comment: from dexseq results to alternative splicing events identification
2.2 years ago by Omics data mining ▴ 260
0
votes
0
replies
416
views
calculate the variance across the samples
10X spatial cell single visium
2.2 years ago by Omics data mining ▴ 260
163 results • Page 1 of 4
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