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News: I created an NGS data analysis tutorial site (ngs101.com)!
NGS Tutorial RNA-seq
updated 3 months ago by 150k • written 3 months ago by ▴ 300
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Compare gene expression between scRNAseq and bulk RNAseq data
scRNAseq RNAseq
3.5 years ago by grayapply2009 ▴ 300
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Comment: Comment: Extremely high adapter content and low alignment rate in RNAseq
3.7 years ago by grayapply2009 ▴ 300
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1.5k
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Extremely high adapter content and low alignment rate in RNAseq
alignment adapter RNAseq
updated 3.7 years ago by 14k • written 3.7 years ago by ▴ 300
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2.6k
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Comment: Comment: Most of the top marker genes identified by FindConservativeMarkers (seurat) have
3.8 years ago by grayapply2009 ▴ 300
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Most of the top marker genes identified by FindConservativeMarkers (seurat) have negative logFC.
findconservativemarkers single seurat marker cell
updated 3.8 years ago by ★ 18k • written 3.8 years ago by ▴ 300
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Comment: Comment: Most of the top marker genes identified by findconservativemarkers (seurat) have
3.8 years ago by grayapply2009 ▴ 300
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Comment: C: How to make a complicated dot plot for scRNAseq marker genes with ggplot2?
4.2 years ago by grayapply2009 ▴ 300
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11k
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Comment: C: How to make a complicated dot plot for scRNAseq marker genes with ggplot2?
4.2 years ago by grayapply2009 ▴ 300
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11k
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Comment: C: How to make a complicated dot plot for scRNAseq marker genes with ggplot2?
4.2 years ago by grayapply2009 ▴ 300
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11k
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Comment: C: How to make a complicated dot plot for scRNAseq marker genes with ggplot2?
4.2 years ago by grayapply2009 ▴ 300
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15
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6 follow
How to make a complicated dot plot for scRNAseq marker genes with ggplot2?
single cell RNAseq ggplot2 RNA-Seq R
updated 13 months ago by ▴ 30 • written 4.2 years ago by ▴ 300
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Comment: C: How to make a complicated dot plot for scRNAseq marker genes with ggplot2?
4.2 years ago by grayapply2009 ▴ 300
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2.8k
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Comment: C: DE analysis with limma (What to include in the model?)
4.6 years ago by grayapply2009 ▴ 300
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2.8k
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Comment: C: DE analysis with limma (What to include in the model?)
4.6 years ago by grayapply2009 ▴ 300
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2.8k
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Comment: C: DE analysis with limma (What to include in the model?)
4.6 years ago by grayapply2009 ▴ 300
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2.8k
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Comment: C: DE analysis with limma (What to include in the model?)
4.6 years ago by grayapply2009 ▴ 300
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14
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2.8k
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DE analysis with limma (What to include in the model?)
DE analysis limma Differential Expression
4.6 years ago by grayapply2009 ▴ 300
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2.8k
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Comment: C: DE analysis with limma (What to include in the model?)
4.6 years ago by grayapply2009 ▴ 300
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2.3k
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Strange Mean-Variance plot after Voom Normalization (RNAseq)
RNA-Seq Normalizaton Voom Limma
updated 4.7 years ago by 20 • written 4.7 years ago by ▴ 300
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2.3k
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Comment: C: Strange Mean-Variance plot after Voom Normalization (RNAseq)
4.7 years ago by grayapply2009 ▴ 300
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Comment: C: Treatment VS Control in Single Cell RNAseq analysis
4.8 years ago by grayapply2009 ▴ 300
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4.5k
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Comment: C: Treatment VS Control in Single Cell RNAseq analysis
4.8 years ago by grayapply2009 ▴ 300
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4.5k
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Treatment VS Control in Single Cell RNAseq analysis
Single Cell RNAseq DE Analysis Treatment Control
updated 11 months ago by 87k • written 4.8 years ago by ▴ 300
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Comment: C: How to find the longest common sequence for a cluster of sequences in a fasta fi
updated 5.2 years ago by 45k • written 9.1 years ago by ▴ 300
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2.5k
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Why are transcripts of a same gene expressed differently in same samples?
transcript expression RNA-Seq
updated 6.4 years ago by ★ 4.1k • written 6.8 years ago by ▴ 300
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7
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What does interproscan add to gene annotation?
RNA-Seq de novo transcriptome annotation
updated 6.7 years ago by ▴ 470 • written 9.7 years ago by ▴ 300
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Comment: C: Why are transcripts of a same gene expressed differently in same samples?
6.8 years ago by grayapply2009 ▴ 300
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2.5k
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Comment: C: Why are transcripts of a same gene expressed differently in same samples?
6.8 years ago by grayapply2009 ▴ 300
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2.5k
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Comment: A: Why are transcripts of a same gene expressed differently in same samples?
6.8 years ago by grayapply2009 ▴ 300
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DNA sequence clustering tools
clustering cdhit redundancy tgicl
updated 7.9 years ago by 20 • written 8.9 years ago by ▴ 300
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2.9k
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Comment: C: Sample size too small for ARACNE
8.0 years ago by grayapply2009 ▴ 300
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2.9k
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Sample size too small for ARACNE
ARACNE sample size
updated 8.0 years ago by 20 • written 9.6 years ago by ▴ 300
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6
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interproscan5 doesn't work for nucelotide sequences but works for protein sequences??
interproscan
updated 2.4 years ago by 45k • written 9.7 years ago by ▴ 300
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Comment: C: How to annotate GEO microarray datasets with GEOquery?
8.6 years ago by grayapply2009 ▴ 300
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7.4k
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Comment: C: How to annotate GEO microarray datasets with GEOquery?
8.6 years ago by grayapply2009 ▴ 300
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How to annotate GEO microarray datasets with GEOquery?
annotation microarray geo
updated 9 months ago by • 0 • written 8.6 years ago by ▴ 300
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3
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Collapse and average the microarray data
awk microarray average
8.6 years ago by grayapply2009 ▴ 300
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2.1k
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Comment: C: Pooling microarray data
8.6 years ago by grayapply2009 ▴ 300
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2.1k
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Comment: C: Pooling microarray data
8.6 years ago by grayapply2009 ▴ 300
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4
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2.1k
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Pooling microarray data
microarray pool
updated 8.6 years ago by 27k • written 8.6 years ago by ▴ 300
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14
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6.3k
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Why redundant results from nr database?
blast nr
updated 3.0 years ago by 45k • written 10.3 years ago by ▴ 300
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1
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2.6k
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How to export annotated sequences with gene symbols to a fasta file using blast2go?
blast blast2go GO ID
updated 8.8 years ago by 20 • written 8.9 years ago by ▴ 300
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Comment: C: How to export annotated sequences with gene symbols to a fasta file using blast2
8.9 years ago by grayapply2009 ▴ 300
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3.5k
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Answer: A: How to find the longest common sequence for a cluster of sequences in a fasta fi
9.1 years ago by grayapply2009 ▴ 300
3
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5
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3.5k
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How to find the longest common sequence for a cluster of sequences in a fasta file using python?
common fasta phthon longest
9.1 years ago by grayapply2009 ▴ 300
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3.5k
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Comment: C: How to find the longest common sequence for a cluster of sequences in a fasta fi
9.1 years ago by grayapply2009 ▴ 300
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3.1k
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Comment: C: How to query nr database using a list of GI numbers to get xml files?
9.2 years ago by grayapply2009 ▴ 300
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3.1k
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Comment: C: How to query nr database using a list of GI numbers to get xml files?
9.2 years ago by grayapply2009 ▴ 300
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7
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How to query nr database using a list of GI numbers to get xml files?
xml annotation blast gi
updated 2.7 years ago by 45k • written 9.2 years ago by ▴ 300
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