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2
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418
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Answer: Answer: Current best practice for alignment and quantification for downstream analysis i
3 months ago by Devon Ryan 105k
2
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1.0k
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Comment: Comment: DESeq2 normalizing against two baselines
6 months ago by Devon Ryan 105k
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1.0k
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Comment: Comment: DESeq2 normalizing against two baselines
6 months ago by Devon Ryan 105k
0
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1
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1.0k
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Comment: Comment: DESeq2 normalizing against two baselines
6 months ago by Devon Ryan 105k
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1
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1.0k
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Comment: Comment: DESeq2 normalizing against two baselines
6 months ago by Devon Ryan 105k
0
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0
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3.2k
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Comment: Comment: counting number of CpGs that are methylated and unmethylated in a read of whole
7 months ago by Devon Ryan 105k
1
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1
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1.3k
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Comment: Comment: Inconsistent Methylation Levels Between Pairs in WGBS Data After Moving to NovaS
7 months ago by Devon Ryan 105k
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1.1k
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Comment: Comment: Upward Sloping P Value Distribution in ATAC-seq Analysis
11 months ago by Devon Ryan 105k
1
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1
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1.1k
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Comment: Comment: Upward Sloping P Value Distribution in ATAC-seq Analysis
11 months ago by Devon Ryan 105k
1
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1
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1.9k
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Comment: Comment: Interaction analysis using DESeq while adjusting for covariates.
12 months ago by Devon Ryan 105k
2
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1
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1.9k
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Answer: Answer: Interaction analysis using DESeq while adjusting for covariates.
12 months ago by Devon Ryan 105k
0
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1
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1.6k
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Comment: Comment: Deeptools scale issue for plotHeatmap
15 months ago by Devon Ryan 105k
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1
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1.6k
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Comment: Comment: Deeptools scale issue for plotHeatmap
15 months ago by Devon Ryan 105k
0
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1
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1.6k
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Comment: Comment: Deeptools scale issue for plotHeatmap
15 months ago by Devon Ryan 105k
2
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0
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2.2k
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Answer: Answer: --normalizeUsing RPGC
17 months ago by Devon Ryan 105k
1
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1
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1.1k
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Comment: Comment: Wrong in Deeptools : the enrichment of TSS and TES region are similar when using
19 months ago by Devon Ryan 105k
1
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0
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1.3k
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Comment: Comment: How to get ncol = nrow?
20 months ago by Devon Ryan 105k
2
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1
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2.7k
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Comment: Comment: ChIP-seq visualization: Is it valid to do a coverage normalization in addition t
21 months ago by Devon Ryan 105k
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1.0k
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Comment: Comment: DESeq2 : parameter of Negative Binomial model in a context of gene expression
2.1 years ago by Devon Ryan 105k
3
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1
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1.9k
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Answer: Answer: No differentially expressed genes after multiple testing correction in mice
2.1 years ago by Devon Ryan 105k
5
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5.2k
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Answer: Answer: Bioinformatics opportunities in Europe?
2.2 years ago by Devon Ryan 105k
0
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0
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1.5k
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Comment: Comment: How Wald test calculates p-values in DESeq2?
2.7 years ago by Devon Ryan 105k
1
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1
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16k
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Comment: Comment: Convert fastq.gz to fastq.bgz
2.7 years ago by Devon Ryan 105k
1
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0
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1.0k
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Comment: Comment: Why the number of genes decreased after dds (DESeqDataSetFromMatrix)?
2.7 years ago by Devon Ryan 105k
0
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0
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2.8k
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Comment: Comment: Come work with me! Bioinformatician - Boston MA
2.8 years ago by Devon Ryan 105k
1
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1
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2.8k
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Comment: Comment: Come work with me! Bioinformatician - Boston MA
2.8 years ago by Devon Ryan 105k
7
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6
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2.8k
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Job: Come work with me! Bioinformatician - Boston MA
bioinformatician
updated 2.0 years ago by 45k • written 2.8 years ago by 105k
2
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1
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1.2k
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Answer: Answer: Do edger, limma and deseq2 can be used with datasets from UMIs
3.1 years ago by Devon Ryan 105k
1
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1
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1.1k
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Comment: Comment: Calculate the ratio of H3K4me3 to H3K4me1 using output of deeptools computeMatri
3.2 years ago by Devon Ryan 105k
1
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0
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1.5k
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Answer: Answer: Interpreting output produced by computeMatrix reference-point
3.2 years ago by Devon Ryan 105k
1
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1
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3.2k
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Comment: Comment: Pool or not to pool
3.2 years ago by Devon Ryan 105k
2
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1
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3.2k
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Comment: Comment: Pool or not to pool
3.2 years ago by Devon Ryan 105k
1
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1
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3.2k
views
Comment: Comment: Pool or not to pool
3.2 years ago by Devon Ryan 105k
1
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1
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2.1k
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Comment: Comment: BAM > featurecount > DEseq2 Nextflow/Snakemake pipeline
3.3 years ago by Devon Ryan 105k
0
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0
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5.5k
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Comment: Comment: Why piping a conda command into bash doesn't work ?
3.3 years ago by Devon Ryan 105k
1
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2
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5.5k
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Comment: Comment: Why piping a conda command into bash doesn't work ?
3.3 years ago by Devon Ryan 105k
1
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0
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3.5k
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Comment: Comment: Extracting Methylation Data
3.3 years ago by Devon Ryan 105k
1
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0
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3.5k
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Comment: Comment: Unexpected Bowtie2 behavior with --phred64 and --phred33 flags
3.4 years ago by Devon Ryan 105k
1
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0
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1.6k
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Comment: Comment: bisulfite methylation alignment rate
3.4 years ago by Devon Ryan 105k
0
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0
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12k
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Comment: Comment: DESeq2 modelling and Wald's test
3.4 years ago by Devon Ryan 105k
1
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1
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3.5k
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Comment: Comment: Unexpected Bowtie2 behavior with --phred64 and --phred33 flags
3.4 years ago by Devon Ryan 105k
2
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1
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4.3k
views
Comment: Comment: normalization for unsupervised analysis by DESeq2
3.4 years ago by Devon Ryan 105k
0
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1
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1.6k
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Comment: Comment: bisulfite methylation alignment rate
3.4 years ago by Devon Ryan 105k
0
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0
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5.4k
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Comment: Comment: HIsat2 bam and summary output - multiple output file type
3.4 years ago by Devon Ryan 105k
2
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0
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4.3k
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Comment: Comment: normalization for unsupervised analysis by DESeq2
3.4 years ago by Devon Ryan 105k
0
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0
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10k
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Comment: Comment: featureCounts isoform vs gene summarization
3.4 years ago by Devon Ryan 105k
2
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0
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1.3k
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Answer: Answer: deeptools plotprofile TSS and TES are very close
3.4 years ago by Devon Ryan 105k
1
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0
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3.0k
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Comment: Comment: delete a file
3.4 years ago by Devon Ryan 105k
2
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0
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1.3k
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Answer: Answer: multiBamSummary for unpaired end read?
3.5 years ago by Devon Ryan 105k
0
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1
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2.2k
views
Answer: Answer: Log2 Scale Deeptools
3.5 years ago by Devon Ryan 105k
10,052 results • Page 1 of 202
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