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183
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Answer:
Answer: Design for complex RNA-Seq experiment using Deseq2
1 day ago by
swbarnes2
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1
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707
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Comment:
Comment: DEG analysis with limma and contrast matrix using multiple Parkinson's cohorts i
2 days ago by
swbarnes2
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1
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707
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Comment:
Comment: DEG analysis with limma and contrast matrix using multiple Parkinson's cohorts i
3 days ago by
swbarnes2
14k
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1
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552
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Answer:
Answer: In IGV is this a heterogeneous mutation or false call?
8 days ago by
swbarnes2
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236
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Comment:
Comment: Differentail gene expression results
10 days ago by
swbarnes2
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0
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288
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Comment:
Comment: How to compute TPM normalized values for TCGA miRNA data?
12 days ago by
swbarnes2
14k
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0
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399
views
Comment:
Comment: Understanding STAR output (Aligned.out.sam file)
12 days ago by
swbarnes2
14k
0
votes
1
reply
370
views
Answer:
Answer: Error in checkFullRank(modelMatrix) : the model matrix is not full rank, so t
13 days ago by
swbarnes2
14k
0
votes
0
replies
491
views
Comment:
Comment: Differential Expression Analysis using DESeq2 in R
15 days ago by
swbarnes2
14k
0
votes
1
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445
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Answer:
Answer: Clarification regarding SAM flags "mate reverse strand" (flag 16/0x10) and "read
15 days ago by
swbarnes2
14k
0
votes
0
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491
views
Comment:
Comment: Differential Expression Analysis using DESeq2 in R
15 days ago by
swbarnes2
14k
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votes
0
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371
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Answer:
Answer: Sequence read length shorter than flow cell specification
23 days ago by
swbarnes2
14k
1
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0
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767
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Comment:
Comment: PCA plot (Suggestions Needed)
24 days ago by
swbarnes2
14k
0
votes
1
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960
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Comment:
Comment: Adding CB tag to bam file
24 days ago by
swbarnes2
14k
1
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0
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767
views
Comment:
Comment: PCA plot (Suggestions Needed)
24 days ago by
swbarnes2
14k
0
votes
0
replies
767
views
Comment:
Comment: PCA plot (Suggestions Needed)
24 days ago by
swbarnes2
14k
0
votes
1
reply
616
views
Comment:
Comment: To get p-values for the TPM
24 days ago by
swbarnes2
14k
1
vote
0
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400
views
Comment:
Comment: Should I use unpaired reads from trimmomatic
25 days ago by
swbarnes2
14k
0
votes
0
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342
views
Answer:
Answer: from row count to tpm
26 days ago by
swbarnes2
14k
0
votes
1
reply
546
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Comment:
Comment: Marking duplicates using UMIs
28 days ago by
swbarnes2
14k
0
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0
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557
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Comment:
Comment: Free/open source 23andme-like analysis
29 days ago by
swbarnes2
14k
0
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0
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1.4k
views
Comment:
Comment: Cellranger count error: Input FASTQ file ended prematurely
29 days ago by
swbarnes2
14k
0
votes
1
reply
960
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Comment:
Comment: Adding CB tag to bam file
29 days ago by
swbarnes2
14k
0
votes
0
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816
views
Comment:
Comment: RNA seq differential expression analysis
4 weeks ago by
swbarnes2
14k
0
votes
1
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960
views
Answer:
Answer: Adding CB tag to bam file
4 weeks ago by
swbarnes2
14k
2
votes
1
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734
views
Answer:
Answer: DEG analysis of RNA-seq data across multiple tissues and two conditions
4 weeks ago by
swbarnes2
14k
0
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0
replies
637
views
Answer:
Answer: Removing adapter/primer sequence from reads while keeping flanking regions
6 weeks ago by
swbarnes2
14k
0
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1
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637
views
Comment:
Comment: Removing adapter/primer sequence from reads while keeping flanking regions
6 weeks ago by
swbarnes2
14k
0
votes
0
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454
views
Comment:
Comment: Seeking Help with Unexpected MA Plot Output
6 weeks ago by
swbarnes2
14k
1
vote
0
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449
views
Comment:
Comment: Problem generating paired end reads when converting Cell Ranger's BAM result to
7 weeks ago by
swbarnes2
14k
0
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0
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341
views
Answer:
Answer: Find out shared differentially expressed genes between two cell lines due to kno
8 weeks ago by
swbarnes2
14k
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votes
0
replies
313
views
Answer:
Answer: Detecting viruses in human rna seq data
8 weeks ago by
swbarnes2
14k
1
vote
1
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437
views
Answer:
Answer: Is it better to pool samples prior to running deseq2, or should the algorithm be
8 weeks ago by
swbarnes2
14k
2
votes
0
replies
609
views
Answer:
Answer: Overriding a color palette in R to emphasize specific data points
9 weeks ago by
swbarnes2
14k
0
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0
replies
591
views
Comment:
Comment: RNA_seq
9 weeks ago by
swbarnes2
14k
0
votes
1
reply
591
views
Answer:
Answer: RNA_seq
9 weeks ago by
swbarnes2
14k
1
vote
0
replies
389
views
Answer:
Answer: Is it feasible to merge Illumina RNA-Seq data with varying read lengths?
9 weeks ago by
swbarnes2
14k
2
votes
0
replies
405
views
Answer:
Answer: Re. Batch effect correction in data with a design matrix without full rank
10 weeks ago by
swbarnes2
14k
0
votes
1
reply
570
views
Answer:
Answer: RNA Seq Sample Outlier
10 weeks ago by
swbarnes2
14k
1
vote
1
reply
446
views
Answer:
Answer: STAR alignment setting for RNA-Seq data from mouse background expressing a human
10 weeks ago by
swbarnes2
14k
1
vote
1
reply
529
views
Answer:
Answer: (STAR) What causes a high number of reads that are unmapped because they are too
10 weeks ago by
swbarnes2
14k
2
votes
1
reply
340
views
Answer:
Answer: Single cell rna sequencing analysis using R help
10 weeks ago by
swbarnes2
14k
3
votes
0
replies
449
views
Answer:
Answer: single cell rna seq-how to DEG analyze??(full code & Dimplot added)
10 weeks ago by
swbarnes2
14k
1
vote
0
replies
259
views
Answer:
Answer: biological replicate in STAR command
11 weeks ago by
swbarnes2
14k
1
vote
0
replies
417
views
Answer:
Answer: PCA plot analysis
11 weeks ago by
swbarnes2
14k
0
votes
1
reply
471
views
Answer:
Answer: ENA fastq file shown as single-end but has 2 fastq files: X.fastq.gz and Y.fastq
12 weeks ago by
swbarnes2
14k
2
votes
0
replies
341
views
Comment:
Comment: Getting less DE genes when incorporating all samples
3 months ago by
swbarnes2
14k
1
vote
0
replies
477
views
Comment:
Comment: Count table statistical analysis
3 months ago by
swbarnes2
14k
1
vote
1
reply
609
views
Comment:
Comment: Trouble Understanding DESeq2 Design Formula ("Model Matrix is not Full Rank")
3 months ago by
swbarnes2
14k
0
votes
0
replies
609
views
Answer:
Answer: Trouble Understanding DESeq2 Design Formula ("Model Matrix is not Full Rank")
3 months ago by
swbarnes2
14k
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