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411
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Integration with Harmony using seurat object + SCTransform
SCTransform seurat scRNAseq
5 months ago by simplitia ▴ 120
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0
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499
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Comment: Comment: How to tell if GEO SRA is paired or single?
6 months ago by simplitia ▴ 120
3
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4
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499
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How to tell if GEO SRA is paired or single?
rnaseq geo
6 months ago by simplitia ▴ 120
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0
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499
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Comment: Comment: How to tell if GEO SRA is paired or single?
6 months ago by simplitia ▴ 120
1
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0
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428
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Comment: Comment: How many IGH genes are there? Confused about nomenclature.
7 months ago by simplitia ▴ 120
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1
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428
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Comment: Comment: How many IGH genes are there? Confused about nomenclature.
7 months ago by simplitia ▴ 120
1
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1
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428
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Comment: Comment: How many IGH genes are there? Confused about nomenclature.
7 months ago by simplitia ▴ 120
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6
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428
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How many IGH genes are there? Confused about nomenclature.
rnaseq genecode
7 months ago by simplitia ▴ 120
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1
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1.2k
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Comment: Comment: What are the units for the sctransform SCT scale.data slots?
10 months ago by simplitia ▴ 120
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1
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1.2k
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Comment: Comment: What are the units for the sctransform SCT scale.data slots?
10 months ago by simplitia ▴ 120
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5
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1.2k
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What are the units for the sctransform SCT scale.data slots?
10x Seurat scRNAseq
updated 10 months ago by 12k • written 10 months ago by ▴ 120
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0
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26k
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Comment: Comment: Over Representation Vs Enrichment Analysis
11 months ago by simplitia ▴ 120
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0
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457
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Comment: Comment: For downstream analysis from cellranger 10x scRNAseq eg. Seurat package, do you
11 months ago by simplitia ▴ 120
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0
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2.5k
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Comment: Comment: What is the best practice of scRNA workflow for multiple patients and samples us
11 months ago by simplitia ▴ 120
1
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2
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457
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For downstream analysis from cellranger 10x scRNAseq eg. Seurat package, do you recommend using raw or filtered matrix?
10x Seurat scRNAseq
11 months ago by simplitia ▴ 120
3
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3
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550
views
Create a bed file bins from fasta?
bed fasta
updated 12 months ago by 12k • written 12 months ago by ▴ 120
0
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4
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585
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Biologically what does it mean when an exon has higher expression?
expression rnaseq gene
updated 13 months ago by 12k • written 13 months ago by ▴ 120
0
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1
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585
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Comment: Comment: Biologically what does it mean when an exon has higher expression?
13 months ago by simplitia ▴ 120
0
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0
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326
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Can RNAseq expression be correlated with differential methylated regions?
rnaseq methylation
17 months ago by simplitia ▴ 120
1
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1
reply
398
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What are the minimum packages required to compile samtools for Debian OS?
samtools
updated 17 months ago by ★ 23k • written 17 months ago by ▴ 120
0
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0
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1.2k
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Comment: Comment: Is there a way to safely remove all underscore from gene id for hg19 from geneco
17 months ago by simplitia ▴ 120
0
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1
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1.2k
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Comment: Comment: Is there a way to safely remove all underscore from gene id for hg19 from geneco
17 months ago by simplitia ▴ 120
0
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1
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1.2k
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Comment: Comment: Is there a way to safely remove all underscore from gene id for hg19 from geneco
17 months ago by simplitia ▴ 120
0
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1
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1.2k
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Comment: Comment: Is there a way to safely remove all underscore from gene id for hg19 from geneco
17 months ago by simplitia ▴ 120
0
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8
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1.2k
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Is there a way to safely remove all underscore from gene id for hg19 from genecode
rnaseq genecode
17 months ago by simplitia ▴ 120
0
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0
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367
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Is there a Grange object for swiss-prot domain? What I want is to detect what domains are overlapping with genomic coordinates.
R
17 months ago by simplitia ▴ 120
0
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1
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452
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Anyone know what the window size ( bin size) for dmrcate is?
EPIC 450K methylation
updated 18 months ago by ★ 1.6k • written 18 months ago by ▴ 120
1
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0
replies
10k
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Comment: Comment: Automatic Outlier Detection for RNA-seq data
20 months ago by simplitia ▴ 120
0
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1
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10k
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Comment: Comment: Automatic Outlier Detection for RNA-seq data
20 months ago by simplitia ▴ 120
1
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0
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707
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Comment: Comment: guilt by association
22 months ago by simplitia ▴ 120
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0
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2.3k
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Comment: Comment: Inserting Variant allele frequency to VCF file
22 months ago by simplitia ▴ 120
0
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0
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468
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Strelka2 stomatic calls, where is the GT tag ?
strelka annovar variant
22 months ago by simplitia ▴ 120
0
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1
reply
603
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converting genomic version for annovar database?
annovar variant
updated 22 months ago by ▴ 570 • written 22 months ago by ▴ 120
0
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0
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1.0k
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Comment: Comment: Is there a way to extract alignment score from STAR aligner bam files?
23 months ago by simplitia ▴ 120
7
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5
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1.0k
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Is there a way to extract alignment score from STAR aligner bam files?
rnaseq
23 months ago by simplitia ▴ 120
0
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0
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1.6k
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Answer: Answer: install R package
23 months ago by simplitia ▴ 120
0
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0
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26k
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Comment: Comment: Introducing Clumpify: Create 30% Smaller, Faster Gzipped Fastq Files. And remov
2.1 years ago by simplitia ▴ 120
0
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1
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1.0k
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Comment: Comment: Extracting reads from fastq files with BBMAP?
2.1 years ago by simplitia ▴ 120
0
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3
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1.0k
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Extracting reads from fastq files with BBMAP?
bbmap fastq
updated 2.1 years ago by 129k • written 2.1 years ago by ▴ 120
0
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1
reply
26k
views
Comment: Comment: Introducing Clumpify: Create 30% Smaller, Faster Gzipped Fastq Files. And remov
2.1 years ago by simplitia ▴ 120
0
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1
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26k
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Comment: Comment: Introducing Clumpify: Create 30% Smaller, Faster Gzipped Fastq Files. And remov
2.1 years ago by simplitia ▴ 120
1
vote
1
reply
553
views
Convert COSMIC VCF coordinates to that of ensembl format?
sequencing SNP alignment next-gen
2.6 years ago by simplitia ▴ 120
0
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0
replies
619
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Where can I get the GTex equivalent to rnaseqv2 Level3 RSEM_genes?
RNA-Seq tcga rsem
2.9 years ago by simplitia ▴ 120
0
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0
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25k
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Comment: C: How To Do Normalization Of Two Chip-Seq Data?
3.0 years ago by simplitia ▴ 120
0
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5
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2.2k
views
Calculating and confirming shRNA knockdown gene from RNA-Seq?
RNA-Seq
updated 3.1 years ago by ▴ 690 • written 5.6 years ago by ▴ 120
1
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1
reply
3.0k
views
Comment: C: How to round the "expected counts" to integers?
3.1 years ago by simplitia ▴ 120
1
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3
replies
1.0k
views
How reliable are the ensembl transcript isoforms?
RNA-Seq ensembl isoform
updated 3.2 years ago by ▴ 330 • written 3.2 years ago by ▴ 120
2
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1
reply
1.4k
views
GRanges: remove ranges that falls in between a larger range?
grange RNA-Seq r
updated 3.2 years ago by ▴ 40 • written 3.2 years ago by ▴ 120
0
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1
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7.9k
views
Comment: C: How to color nodes in Cytoscape according to expression of genes? How should the
3.3 years ago by simplitia ▴ 120
0
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1
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14k
views
Answer: A: TMM or TPM normalized counts for visualization?
3.6 years ago by simplitia ▴ 120
74 results • Page 1 of 2
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