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Comment: Comment: Understanding STAR output (Aligned.out.sam file)
5 months ago by swbarnes2 14k
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562
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Answer: Answer: Error in checkFullRank(modelMatrix) : the model matrix is not full rank, so t
5 months ago by swbarnes2 14k
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766
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Comment: Comment: Differential Expression Analysis using DESeq2 in R
5 months ago by swbarnes2 14k
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738
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Answer: Answer: Clarification regarding SAM flags "mate reverse strand" (flag 16/0x10) and "read
5 months ago by swbarnes2 14k
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766
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Comment: Comment: Differential Expression Analysis using DESeq2 in R
5 months ago by swbarnes2 14k
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558
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Answer: Answer: Sequence read length shorter than flow cell specification
5 months ago by swbarnes2 14k
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1.0k
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Comment: Comment: PCA plot (Suggestions Needed)
5 months ago by swbarnes2 14k
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1.5k
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Comment: Comment: Adding CB tag to bam file
5 months ago by swbarnes2 14k
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1.0k
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Comment: Comment: PCA plot (Suggestions Needed)
5 months ago by swbarnes2 14k
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1.0k
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Comment: Comment: PCA plot (Suggestions Needed)
5 months ago by swbarnes2 14k
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1
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875
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Comment: Comment: To get p-values for the TPM
5 months ago by swbarnes2 14k
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669
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Comment: Comment: Should I use unpaired reads from trimmomatic
5 months ago by swbarnes2 14k
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551
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Answer: Answer: from row count to tpm
5 months ago by swbarnes2 14k
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781
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Comment: Comment: Marking duplicates using UMIs
5 months ago by swbarnes2 14k
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740
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Comment: Comment: Free/open source 23andme-like analysis
5 months ago by swbarnes2 14k
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1.8k
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Comment: Comment: Cellranger count error: Input FASTQ file ended prematurely
5 months ago by swbarnes2 14k
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1.5k
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Comment: Comment: Adding CB tag to bam file
5 months ago by swbarnes2 14k
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985
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Comment: Comment: RNA seq differential expression analysis
5 months ago by swbarnes2 14k
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1.5k
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Answer: Answer: Adding CB tag to bam file
5 months ago by swbarnes2 14k
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1.1k
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Answer: Answer: DEG analysis of RNA-seq data across multiple tissues and two conditions
5 months ago by swbarnes2 14k
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1.0k
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Answer: Answer: Removing adapter/primer sequence from reads while keeping flanking regions
6 months ago by swbarnes2 14k
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1.0k
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Comment: Comment: Removing adapter/primer sequence from reads while keeping flanking regions
6 months ago by swbarnes2 14k
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678
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Comment: Comment: Seeking Help with Unexpected MA Plot Output
6 months ago by swbarnes2 14k
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647
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Comment: Comment: Problem generating paired end reads when converting Cell Ranger's BAM result to
6 months ago by swbarnes2 14k
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452
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Answer: Answer: Find out shared differentially expressed genes between two cell lines due to kno
6 months ago by swbarnes2 14k
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440
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Answer: Answer: Detecting viruses in human rna seq data
6 months ago by swbarnes2 14k
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573
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Answer: Answer: Is it better to pool samples prior to running deseq2, or should the algorithm be
6 months ago by swbarnes2 14k
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1.0k
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Answer: Answer: Overriding a color palette in R to emphasize specific data points
6 months ago by swbarnes2 14k
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808
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Comment: Comment: RNA_seq
6 months ago by swbarnes2 14k
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1
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808
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Answer: Answer: RNA_seq
6 months ago by swbarnes2 14k
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0
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567
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Answer: Answer: Is it feasible to merge Illumina RNA-Seq data with varying read lengths?
6 months ago by swbarnes2 14k
2
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536
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Answer: Answer: Re. Batch effect correction in data with a design matrix without full rank
7 months ago by swbarnes2 14k
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1
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832
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Answer: Answer: RNA Seq Sample Outlier
7 months ago by swbarnes2 14k
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685
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Answer: Answer: STAR alignment setting for RNA-Seq data from mouse background expressing a human
7 months ago by swbarnes2 14k
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1
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1.0k
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Answer: Answer: (STAR) What causes a high number of reads that are unmapped because they are too
7 months ago by swbarnes2 14k
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1
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568
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Answer: Answer: Single cell rna sequencing analysis using R help
7 months ago by swbarnes2 14k
3
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689
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Answer: Answer: single cell rna seq-how to DEG analyze??(full code & Dimplot added)
7 months ago by swbarnes2 14k
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345
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Answer: Answer: biological replicate in STAR command
7 months ago by swbarnes2 14k
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606
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Answer: Answer: PCA plot analysis
7 months ago by swbarnes2 14k
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1
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629
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Answer: Answer: ENA fastq file shown as single-end but has 2 fastq files: X.fastq.gz and Y.fastq
7 months ago by swbarnes2 14k
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476
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Comment: Comment: Getting less DE genes when incorporating all samples
7 months ago by swbarnes2 14k
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0
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627
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Comment: Comment: Count table statistical analysis
7 months ago by swbarnes2 14k
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1
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912
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Comment: Comment: Trouble Understanding DESeq2 Design Formula ("Model Matrix is not Full Rank")
8 months ago by swbarnes2 14k
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0
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912
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Answer: Answer: Trouble Understanding DESeq2 Design Formula ("Model Matrix is not Full Rank")
8 months ago by swbarnes2 14k
1
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0
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864
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Comment: Comment: Three fastq files
8 months ago by swbarnes2 14k
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0
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635
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Comment: Comment: Differential gene expression design using Deseq2
8 months ago by swbarnes2 14k
2
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1
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1.6k
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Comment: Comment: Expression analysis of LncRNA from RNA-seq data
8 months ago by swbarnes2 14k
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1
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1.6k
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Comment: Comment: Expression analysis of LncRNA from RNA-seq data
8 months ago by swbarnes2 14k
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774
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Answer: Answer: Help interpreting Samtools Flagstat results
8 months ago by swbarnes2 14k
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0
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648
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Comment: Comment: Running Deseq2 with all samples vs samples for each comparison separately
8 months ago by swbarnes2 14k
2,053 results • Page 2 of 42
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