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179
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Answer: Answer: STAR --sjdbGTFfile in alignment step
10 weeks ago by dsull ★ 6.1k
1
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0
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361
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Comment: Comment: RNA-seq bam file normalization
11 weeks ago by dsull ★ 6.1k
1
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1
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335
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Answer: Answer: scRNAseq output generated using STARsolo has gene_id rather than gene_name
11 weeks ago by dsull ★ 6.1k
2
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0
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398
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Comment: Comment: How I should set `STAR` parameters to keep all the intronic reads?
12 weeks ago by dsull ★ 6.1k
4
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1
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398
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Answer: Answer: How I should set `STAR` parameters to keep all the intronic reads?
12 weeks ago by dsull ★ 6.1k
1
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1
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665
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Comment: Comment: Huge decrease of BUS records using bustools
12 weeks ago by dsull ★ 6.1k
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1
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292
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Comment: Comment: Why does Phred+ encoding changes after trimming fastq files??
12 weeks ago by dsull ★ 6.1k
3
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0
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621
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Answer: Answer: Would reaching out to local labs and startups help with my career transition?
3 months ago by dsull ★ 6.1k
0
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0
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646
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Answer: Answer: Making PCA plot using variance instead of counts on Sleuth (plot_pca)
updated 3 months ago by 44k • written 3 months ago by ★ 6.1k
0
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0
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646
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Comment: Comment: Making PCA plot using variance instead of counts on Sleuth (plot_pca)
3 months ago by dsull ★ 6.1k
2
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0
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557
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Comment: Comment: How does kallisto handle multi mapped reads?
3 months ago by dsull ★ 6.1k
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0
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270
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Answer: Answer: Using tophat2 output for kallisto
3 months ago by dsull ★ 6.1k
0
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2
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557
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Comment: Comment: How does kallisto handle multi mapped reads?
3 months ago by dsull ★ 6.1k
2
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1
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411
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Answer: Answer: bulk seq vs. sc-seq
3 months ago by dsull ★ 6.1k
0
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1
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611
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Comment: Comment: Differential expression analysis with very high duplication rate
3 months ago by dsull ★ 6.1k
0
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1
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611
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Answer: Answer: Differential expression analysis with very high duplication rate
3 months ago by dsull ★ 6.1k
1
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0
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425
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Answer: Answer: How to do DESeq2 on Kallisto Data
3 months ago by dsull ★ 6.1k
0
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1
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488
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Comment: Comment: How to exclude sex-dependent genes from RNASEQ?
3 months ago by dsull ★ 6.1k
1
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0
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488
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Comment: Comment: How to exclude sex-dependent genes from RNASEQ?
3 months ago by dsull ★ 6.1k
1
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1
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684
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Comment: Comment: Why employ normalization methods, and how can they be utilized in DEG analysis?
3 months ago by dsull ★ 6.1k
2
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1
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687
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Comment: Comment: RNA seq, correlation, gene expression, STAR count
3 months ago by dsull ★ 6.1k
3
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1
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687
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Answer: Answer: RNA seq, correlation, gene expression, STAR count
3 months ago by dsull ★ 6.1k
0
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0
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1.1k
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Comment: Comment: I would like to exclude rRNA in RSEM and quantify other genes.
3 months ago by dsull ★ 6.1k
2
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1
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1.1k
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Comment: Comment: I would like to exclude rRNA in RSEM and quantify other genes.
4 months ago by dsull ★ 6.1k
0
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0
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144k
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Comment: Comment: The Biostar Handbook. A bioinformatics e-book for beginners.
4 months ago by dsull ★ 6.1k
1
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1
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1.1k
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Answer: Answer: I would like to exclude rRNA in RSEM and quantify it.
4 months ago by dsull ★ 6.1k
0
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0
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1.1k
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Comment: Comment: Troubleshooting RNA-seq data with DNA contamination
4 months ago by dsull ★ 6.1k
1
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1
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1.1k
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Comment: Comment: Troubleshooting RNA-seq data with DNA contamination
4 months ago by dsull ★ 6.1k
0
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1
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1.1k
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Comment: Comment: Troubleshooting RNA-seq data with DNA contamination
4 months ago by dsull ★ 6.1k
0
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1
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1.1k
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Comment: Comment: Troubleshooting RNA-seq data with DNA contamination
4 months ago by dsull ★ 6.1k
2
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2
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1.1k
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Comment: Comment: Can I estimate RNA velocity in Visium Spatial Gene Expression for FFPE
4 months ago by dsull ★ 6.1k
1
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1
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1.1k
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Comment: Comment: Can I estimate RNA velocity in Visium Spatial Gene Expression for FFPE
4 months ago by dsull ★ 6.1k
0
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0
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2.2k
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Comment: Comment: Determining computer time required
4 months ago by dsull ★ 6.1k
0
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0
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679
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Comment: Comment: Problem in Salmon when indexing Rattus_norvegicus
4 months ago by dsull ★ 6.1k
1
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0
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2.2k
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Comment: Comment: Determining computer time required
4 months ago by dsull ★ 6.1k
0
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2
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2.2k
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Comment: Comment: Determining computer time required
4 months ago by dsull ★ 6.1k
1
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2
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2.2k
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Comment: Comment: Determining computer time required
4 months ago by dsull ★ 6.1k
3
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1
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346
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Answer: Answer: Using Expression of a Gene as a Linear Regression Variable
4 months ago by dsull ★ 6.1k
2
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1
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418
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Answer: Answer: STAR index generation killed after "inserting junctions into the genome indices"
updated 4 months ago by 82k • written 4 months ago by ★ 6.1k
0
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0
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958
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Comment: Comment: Deciding if a study used Bulk or single-cell RNA sequencing using the GEO data
4 months ago by dsull ★ 6.1k
0
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0
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958
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Comment: Comment: Deciding if a study used Bulk or single-cell RNA sequencing using the GEO data
4 months ago by dsull ★ 6.1k
4
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0
replies
2.1k
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Comment: Comment: First experiences matter
4 months ago by dsull ★ 6.1k
1
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1
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754
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Comment: Comment: Log2 transformation is well used, but is there a good paper that can be used as
4 months ago by dsull ★ 6.1k
2
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1
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754
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Comment: Comment: Tests for the linear and non-linear relationship between two genes
4 months ago by dsull ★ 6.1k
0
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0
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886
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Comment: Comment: Inquiry Regarding Cutoff for Survival Analysis
5 months ago by dsull ★ 6.1k
0
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0
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608
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Comment: Comment: Kallisto-Bustools Output prpblems
5 months ago by dsull ★ 6.1k
1
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1
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608
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Answer: Answer: Kallisto-Bustools Output prpblems
5 months ago by dsull ★ 6.1k
0
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0
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622
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Comment: Comment: Kallisto-bustools output to Seurat Object
5 months ago by dsull ★ 6.1k
2
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1
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622
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Answer: Answer: Kallisto-bustools output to Seurat Object
5 months ago by dsull ★ 6.1k
0
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1
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805
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Comment: Comment: bwa-mem reproducibility
5 months ago by dsull ★ 6.1k
622 results • Page 2 of 13
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