Bioconductor Genesis

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genesis admixmap

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

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genesis gwastools seqarray

5.6 years ago • updated 5.3 years ago Stephanie M. Gogarten ▴ 870

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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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LMM GWAS GENESIS assocTestMM

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

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GENESIS

updated 4.3 years ago by Stephanie M. Gogarten ▴ 870 • written 4.3 years ago by lassana.a.samarakoon ▴ 10

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genesis admixmap

updated 4.7 years ago by Stephanie M. Gogarten ▴ 870 • written 4.7 years ago by GENOMIC_region • 0

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782

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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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genesis

4.5 years ago Stephanie M. Gogarten ▴ 870

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genesis pcair

6.0 years ago GENOMIC_region • 0

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gwas genesis p-value q-q-plot

updated 3.3 years ago by Anna • 0 • written 4.4 years ago by solanum • 0

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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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GENESIS autosome-only=FALSE? PCAir

updated 6 months ago by James W. MacDonald 65k • written 6 months ago by gabry.scata • 0

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GENESIS GWAS AssocTestMM

updated 5.5 years ago by mconomos ▴ 70 • written 5.5 years ago by naglemi ▴ 10

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GENESIS zscore wald

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

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GENESIS

4.6 years ago Corey.Cox • 0

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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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GENESIS

3.5 years ago Stephanie M. Gogarten ▴ 870

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852

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GENESIS

3.4 years ago Stephanie M. Gogarten ▴ 870

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GENESIS SeqVarTools

updated 6 months ago by Stephanie M. Gogarten ▴ 870 • written 6 months ago by pjuge • 0

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715

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kingToMatrix GENESIS Plants

19 months ago • updated 18 months ago Monica • 0

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449

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assocTestSingle GENESIS

written 15 months ago by SuperD • 0

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426

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GENESIS GWASTools GDSfile

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

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289

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GENESIS admixMap

7 months ago mailtoshivam13 • 0

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1.8k

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genesis

6.0 years ago Stephanie M. Gogarten ▴ 870

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225

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GENESIS

3 months ago Stephanie M. Gogarten ▴ 870

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1.2k

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GENESIS assoctestmm GWAS

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

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791

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genesis

5.8 years ago Stephanie M. Gogarten ▴ 870

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989

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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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911

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genesis snprelate

5.6 years ago Stephanie M. Gogarten ▴ 870

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984

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GENESIS GWAS resampling resample statistics

5.3 years ago naglemi ▴ 10

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2.3k

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genesis pcrelate gds

updated 5.2 years ago by Stephanie M. Gogarten ▴ 870 • written 5.2 years ago by o.giannakopoulou • 0

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919

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genesis

5.1 years ago Stephanie M. Gogarten ▴ 870

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1.2k

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genesis fitnullmodel gwas ascertainment

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

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1.7k

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Genesis Installation

updated 4.8 years ago by Mike Smith ★ 6.5k • written 4.8 years ago by winstondunnmd ▴ 10

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869

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rna-seq tmixclust k-means clustering gene expression genesis

4.4 years ago astridite • 0

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1.5k

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Genesis

4.3 years ago alipka ▴ 10

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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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913

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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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797

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genesis gwastools

3.8 years ago Stephanie M. Gogarten ▴ 870

39 results • Page 1 of 1

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Comment: Can I trust the differential expression analysis when the two groups overlap on by Eric Katagirya • 0

I created a DESeqDataSet object using DESeqDataSetFromMatrix function. I don't anticipate any mismatching or mixup of sampleIDs.

Answer: Assymetric MA plot with no overall trend by Michael Love 42k

> so many upregulated genes vs. downregulated, which I think is worrying Take a look at the plotCounts for a couple of the up-regulated …

Comment: Can I trust the differential expression analysis when the two groups overlap on by Michael Love 42k

I'm wondering about sample table mixup. How have you merged your sequencing data with the phenotype data (`colData`)?

Comment: Can I trust the differential expression analysis when the two groups overlap on by Eric Katagirya • 0

Thanks @mikelove , Using vst or rlog doesn't improve the segregation nor is there a remarkable difference when I use 1000 or 2000 most vari…

Answer: Batch effect correction: methylome data by zhouwanding ▴ 10

I agree that the batch variable should be better modeled as a co-variate than explicit batch correction. There is also RUVm (https://www.nc…

Votes

Ensembl 112 has been released.

A: Diffbind results - non uniform width

A: Different logFC (log2foldchange) values for genes from limma-voom and other too

Answer: Error EPICv2 ChAMP

Comment: Store output of matchPWM()

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