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Answer: Answer: Design for complex RNA-Seq experiment using Deseq2
1 day ago by swbarnes2 14k
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557
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Answer: Answer: In IGV is this a heterogeneous mutation or false call?
8 days ago by swbarnes2 14k
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371
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Answer: Answer: Error in checkFullRank(modelMatrix) : the model matrix is not full rank, so t
13 days ago by swbarnes2 14k
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447
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Answer: Answer: Clarification regarding SAM flags "mate reverse strand" (flag 16/0x10) and "read
16 days ago by swbarnes2 14k
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372
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Answer: Answer: Sequence read length shorter than flow cell specification
23 days ago by swbarnes2 14k
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345
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Answer: Answer: from row count to tpm
27 days ago by swbarnes2 14k
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961
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Answer: Answer: Adding CB tag to bam file
4 weeks ago by swbarnes2 14k
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734
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Answer: Answer: DEG analysis of RNA-seq data across multiple tissues and two conditions
4 weeks ago by swbarnes2 14k
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639
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Answer: Answer: Removing adapter/primer sequence from reads while keeping flanking regions
6 weeks ago by swbarnes2 14k
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342
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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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314
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Answer: Answer: Detecting viruses in human rna seq data
8 weeks ago by swbarnes2 14k
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438
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Answer: Answer: Is it better to pool samples prior to running deseq2, or should the algorithm be
8 weeks ago by swbarnes2 14k
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612
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Answer: Answer: Overriding a color palette in R to emphasize specific data points
9 weeks ago by swbarnes2 14k
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591
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Answer: Answer: RNA_seq
9 weeks ago by swbarnes2 14k
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390
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Answer: Answer: Is it feasible to merge Illumina RNA-Seq data with varying read lengths?
9 weeks ago by swbarnes2 14k
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405
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Answer: Answer: Re. Batch effect correction in data with a design matrix without full rank
10 weeks ago by swbarnes2 14k
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570
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Answer: Answer: RNA Seq Sample Outlier
10 weeks ago by swbarnes2 14k
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447
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Answer: Answer: STAR alignment setting for RNA-Seq data from mouse background expressing a human
10 weeks ago by swbarnes2 14k
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529
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Answer: Answer: (STAR) What causes a high number of reads that are unmapped because they are too
10 weeks ago by swbarnes2 14k
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340
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Answer: Answer: Single cell rna sequencing analysis using R help
10 weeks ago by swbarnes2 14k
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449
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Answer: Answer: single cell rna seq-how to DEG analyze??(full code & Dimplot added)
10 weeks ago by swbarnes2 14k
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260
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Answer: Answer: biological replicate in STAR command
11 weeks ago by swbarnes2 14k
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418
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Answer: Answer: PCA plot analysis
11 weeks ago by swbarnes2 14k
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472
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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
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611
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Answer: Answer: Trouble Understanding DESeq2 Design Formula ("Model Matrix is not Full Rank")
3 months ago by swbarnes2 14k
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595
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Answer: Answer: Help interpreting Samtools Flagstat results
3 months ago by swbarnes2 14k
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487
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Answer: Answer: Running Deseq2 with all samples vs samples for each comparison separately
4 months ago by swbarnes2 14k
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361
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Answer: Answer: Interpretation of output from MiXCR TCR sequencing
4 months ago by swbarnes2 14k
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371
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Answer: Answer: Strand information from reverse stranded RNA-seq
4 months ago by swbarnes2 14k
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650
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Answer: Answer: bcl2fastq problems with the yield
5 months ago by swbarnes2 14k
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502
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Answer: Answer: Are 10x cellranger-arc ATAC bam files deduplicated?
5 months ago by swbarnes2 14k
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410
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Answer: Answer: Bulk and Single Cell RNA-seq online course
5 months ago by swbarnes2 14k
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860
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Answer: Answer: STAR ALIGNMENT
6 months ago by swbarnes2 14k
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996
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Answer: Answer: Handling multiple fastq files per sample, per lane, per read out of the Cellrang
6 months ago by swbarnes2 14k
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791
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Answer: Answer: RNAseq how to map Mouse+Virus Genome with STAR
6 months ago by swbarnes2 14k
2
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761
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Answer: Answer: batch correction in DESeq2
6 months ago by swbarnes2 14k
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473
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Answer: Answer: Help with DESeq2 Analysis of Multiple Conditions
7 months ago by swbarnes2 14k
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778
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Answer: Answer: DESeq2: DESeqDataSetFromMatrix Error
7 months ago by swbarnes2 14k
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922
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Answer: Answer: I have performed Trimmomatic run for adapter removal. QC report shows drop in th
7 months ago by swbarnes2 14k
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779
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Answer: Answer: DESeq2 analysis using two featureCounts generated from different studies
8 months ago by swbarnes2 14k
5
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1.1k
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Answer: Answer: Adding a control sample to bulk RNA-seq
8 months ago by swbarnes2 14k
2
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546
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Answer: Answer: DESeq2 design comparing changes through 2 timepoints of 2 different treatments.
8 months ago by swbarnes2 14k
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513
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Answer: Answer: sequencing machines output files layout
8 months ago by swbarnes2 14k
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543
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Answer: Answer: DESeqDataSetFromMatrix error
8 months ago by swbarnes2 14k
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471
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Answer: Answer: Deseq2
8 months ago by swbarnes2 14k
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796
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Answer: Answer: DESEQ2 analysis - PCA plot
9 months ago by swbarnes2 14k
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479
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Answer: Answer: Add gene counts of same samples run on two lanes (Novaseq)
10 months ago by swbarnes2 14k
2
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651
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Answer: Answer: bcl2fastq not recognizing multiple barcode-mismatch argument
10 months ago by swbarnes2 14k
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1.2k
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Answer: Answer: Is RSEM required for RNA-seq data analysis using STAR and edgeR?
10 months ago by swbarnes2 14k
1
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0
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691
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Answer: Answer: 10x genomics hashtag samples
10 months ago by swbarnes2 14k
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