Bioconductor Genesis

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199

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GENESIS

10 weeks ago Stephanie M. Gogarten ▴ 870

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386

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GENESIS GWASTools GDSfile

updated 4 months ago by Stephanie M. Gogarten ▴ 870 • written 4 months ago by Mindy wang • 0

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386

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GENESIS SeqVarTools

updated 5 months ago by Stephanie M. Gogarten ▴ 870 • written 5 months ago by pjuge • 0

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431

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GENESIS autosome-only=FALSE? PCAir

updated 5 months ago by James W. MacDonald 65k • written 5 months ago by gabry.scata • 0

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266

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GENESIS admixMap

6 months ago mailtoshivam13 • 0

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758

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GENESIS

updated 10 months ago by Stephanie M. Gogarten ▴ 870 • written 10 months ago by SuperDad • 0

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430

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assocTestSingle GENESIS

written 14 months ago by SuperD • 0

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700

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kingToMatrix GENESIS Plants

18 months ago Monica • 0

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4.0k

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gwas genesis p-value q-q-plot

updated 3.2 years ago by Anna • 0 • written 4.4 years ago by solanum • 0

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825

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GENESIS

3.4 years ago Stephanie M. Gogarten ▴ 870

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675

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GENESIS

3.4 years ago Stephanie M. Gogarten ▴ 870

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1.4k

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genesis effect allele association analysis

updated 3.7 years ago by Stephanie M. Gogarten ▴ 870 • written 3.7 years ago by ucbtapc • 0

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780

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genesis gwastools

3.8 years ago Stephanie M. Gogarten ▴ 870

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895

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genesis

updated 3.8 years ago by Stephanie M. Gogarten ▴ 870 • written 3.8 years ago by o.giannakopoulou • 0

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1.1k

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genesis gds SeqVarData

updated 3.9 years ago by Stephanie M. Gogarten ▴ 870 • written 3.9 years ago by JT • 0

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1.5k

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Genesis

4.2 years ago alipka ▴ 10

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658

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GENESIS

updated 4.2 years ago by Stephanie M. Gogarten ▴ 870 • written 4.2 years ago by lassana.a.samarakoon ▴ 10

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855

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rna-seq tmixclust k-means clustering gene expression genesis

4.4 years ago astridite • 0

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798

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genesis

4.4 years ago Stephanie M. Gogarten ▴ 870

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1.3k

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GENESIS

4.5 years ago Corey.Cox • 0

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986

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GENESIS zscore wald

updated 4.5 years ago by Stephanie M. Gogarten ▴ 870 • written 4.6 years ago by lassana.a.samarakoon ▴ 10

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1.4k

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genesis output score

updated 4.6 years ago by Stephanie M. Gogarten ▴ 870 • written 4.6 years ago by lassana.a.samarakoon ▴ 10

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1.1k

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genesis admixmap

updated 4.6 years ago by Stephanie M. Gogarten ▴ 870 • written 4.6 years ago by GENOMIC_region • 0

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1.6k

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Genesis Installation

updated 4.7 years ago by Mike Smith ★ 6.5k • written 4.7 years ago by winstondunnmd ▴ 10

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1.2k

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genesis fitnullmodel gwas ascertainment

updated 4.7 years ago by mconomos ▴ 70 • written 4.8 years ago by ferranpauls10 • 0

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2.7k

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genesis admixmap

updated 5.0 years ago by Stephanie M. Gogarten ▴ 870 • written 5.0 years ago by GENOMIC_region • 0

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908

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genesis

5.1 years ago Stephanie M. Gogarten ▴ 870

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2.2k

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genesis pcrelate gds

updated 5.1 years ago by Stephanie M. Gogarten ▴ 870 • written 5.1 years ago by o.giannakopoulou • 0

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1.8k

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genesis gwastools seqarray

5.5 years ago • updated 5.2 years ago Stephanie M. Gogarten ▴ 870

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965

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GENESIS GWAS resampling resample statistics

5.2 years ago naglemi ▴ 10

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919

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GENESIS GWAS AssocTestMM

updated 5.4 years ago by mconomos ▴ 70 • written 5.4 years ago by naglemi ▴ 10

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901

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genesis pcrrelate gds

updated 5.5 years ago by Stephanie M. Gogarten ▴ 870 • written 5.5 years ago by roll • 0

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896

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genesis snprelate

5.6 years ago Stephanie M. Gogarten ▴ 870

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971

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GENESIS GWAS GDS

updated 5.6 years ago by zhengx ▴ 30 • written 5.6 years ago by naglemi ▴ 10

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777

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genesis

5.7 years ago Stephanie M. Gogarten ▴ 870

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1.2k

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GENESIS assoctestmm GWAS

updated 5.7 years ago by mconomos ▴ 70 • written 5.8 years ago by naglemi ▴ 10

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1.5k

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LMM GWAS GENESIS assocTestMM

updated 5.8 years ago by mconomos ▴ 70 • written 5.8 years ago by naglemi ▴ 10

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1.6k

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genesis pcair

6.0 years ago GENOMIC_region • 0

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1.8k

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genesis

6.0 years ago Stephanie M. Gogarten ▴ 870

39 results • Page 1 of 1

Recent ...

Replies

Answer: DESEQ2 IHW and Apelgm method for Shrinkage (adding s values to FDR) by Michael Love 41k

> I got many p values that had "1.000000e+00" and padj "1" and stat of "0" when I added the Log threshold of LFC >1 and LFC < -1...is this …

Comment: Trying to use enrichGO by fernanda.backsouza ▴ 10

With all my love, thank you Guido, GOxploreR beeing a big ally for me. I don't know how to be grateful right now.

Comment: DESeq2 output used for PCA plot on R studio by swbarnes2 ★ 1.3k

You didn't generate it with an experiment, you made it up: Your PCA doesn't look like a good RNASeq experiment, because it's not.

Answer: Opposite sign of LFC in count plots of DEGs (DESeq2) by swbarnes2 ★ 1.3k

Your contrast is comparing LGR5 to Homeostasis. The bottom 2 are fine, it's the top one that is wrong. Are you sure this step isn't misla…

Comment: get BM error by James W. MacDonald 65k

I believe you need NCBI Gene IDs for KEGG, in which case you may need to map. The three genes you have shown here don't map, and of those t…

Votes

C: when to apply quantile normalization with voom in limma/voom framework with RNA-

A: How to know if I should use voomWithQualityWeights() or not?

A: Weird results (ribosomal proteins / Y-linked genes) in limma/voom

Answer: Log-cpm values from limma

Awards • All

Teacher to Gordon Smyth 50k