Bioconductor BSGenome

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BSgenome

updated 8 weeks ago by James W. MacDonald 65k • written 11 weeks ago by Kate • 0

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530

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OrgDb BSgenome

6 months ago • updated 12 weeks ago mat149 ▴ 70

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859

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BSgenome

updated 3 months ago by eviatar.weizman • 0 • written 24 months ago by remerandmaxence ▴ 10

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585

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SNPlocs BSgenome

written 6 months ago by Stevie Pederson • 0

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690

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intron BSgenome.Hsapiens.UCSC.hg38 BSgenome

updated 10 months ago by ATpoint ★ 4.1k • written 10 months ago by Lillian • 0

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944

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BSgenomeForge BSgenome

updated 10 months ago by James W. MacDonald 65k • written 10 months ago by kyliecode • 0

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739

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bsgenome GenomicFeatures package

updated 11 months ago by Hervé Pagès 16k • written 11 months ago by Manish • 0

7 results • Page 1 of 1

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Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa by Michael Love 41k

Sorry, for questions about statistical analysis plan and interpretation of results, I recommend to work with a local statistician or someon…

Answer: Fold change calculation in Diffbind vs. DESEQ2? by Michael Love 41k

There was a recent DiffBind question on the support site that noticed the same thing, try searching recent DiffBind posts.

Answer: Timecourse RNASeq analysis by Michael Love 41k

There are many choices for time course, and we have an example in our workflow (rnaseqGene). Otherwise, I recommend to consult a local …

Answer: Padj "NA" with thousands of low count although the raw read counts are quite lar by Michael Love 41k

You can either turn off independent filtering in `results` or use `ihw` see the vignette.

Comment: Why p value inconsistent when using different number of pathway score? by Chris • 0

Thanks Gordon for a detail guide! You have a great memory of time. GSVA also do differential express at pathway level (https://bioconductor…

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Comment: Why p value inconsistent when using different number of pathway score?

Nominations for Bioconductor Awards 2024!

Answer: Improving the design matrices vignette in RNAseq123

Answer: Perform gene set enrichment analysis using fgsea on two conditions that don't ha

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Commentator to Leonard Goldstein ▴ 200