Showing : ncbi geo • reset
2
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NCBI FTP server IP address
NCBI GEO
updated 4.1 years ago by • 0 • written 8.9 years ago by ▴ 10
0
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2
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1.4k
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GEOQuery bug, NCBI or package?
geoquery ncbi geo biobase
6.1 years ago cschot3 • 0
2
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3
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2.1k
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Using LIMMA for differential gene analysis of microarray data
limma differential gene expression ncbi geo affymetrix microarrays
updated 6.1 years ago by ★ 28k • written 6.1 years ago by • 0
3
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1
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Processing several GSM from GEO database using Barcode and fRMA
frma barcode geneexpression gsm ncbi geo
updated 7.1 years ago by ▴ 830 • written 7.1 years ago by • 0
3
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1.4k
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Difficulty for analysis of GSE7864
limma microarray bioconductor ncbi geo
updated 7.9 years ago by 52k • written 7.9 years ago by ▴ 10
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4.3k
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GEOquery Fails to Download Series Matrix File
geoquery ncbi geo geo data
8.1 years ago fongchunchan ▴ 30
6 results • Page 1 of 1
Recent ...
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Answer: Cross-validation with multiple control subgroups in limma by Gordon Smyth 52k
limma doesn't do cross-validation or resampling. Like most classical linear modeling procedures in statistics, limma uses a statistical mod…
Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio by Robert Castelo ★ 3.4k
Hi Hervé, thank you very much for your input into how to properly build and manage TxDb objects. gDNAx has two main inputs, one or more BAM…
Comment: Biostrings: Error writing long reads (>200 kbps) with writeQualityScaledXStringS by Aidan ▴ 60
Quick update: this is fixed in a branch awaiting PR to Biostrings (https://github.com/Bioconductor/Biostrings/pull/122). Should be in `deve…
Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings? by Michael Love 43k
For statistical analysis plans, I recommend working with a local statistician or someone familiar with linear models in R. I have to reserv…
Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K? by xiaofeiwang198266 • 0
Thanks for your reply!
Votes
C: edgeR and lack of counts ID on CPM matrix
A: DESeq2 Following RSEM
A: importing RSEM data into DESeq2
A: Expected counts from RSEM in DESeq2
A: Using RSEM reads for DESeq2
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