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TnSeq as ZINB? Alternatives in R?
DESeq2 R edgeR Python TnSeq
updated 2.4 years ago by • 0 • written 2.5 years ago by ▴ 90
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Job: Bioconductor Core developers group opening
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2.7 years ago Vincent J. Carey, Jr. 6.7k
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Change the interval of bed file
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updated 3.3 years ago by 68k • written 3.3 years ago by • 0
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python and R
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4.0 years ago Ewa • 0
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DEXSeq Python script dexseq_prepare_annotation.py unable to process my .gtf file
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Load data with rhdf5
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Are there any functions to subtract all features(rows) to a particular value(row) in the same data file?
R python normalization matrix
updated 5.8 years ago by ▴ 30 • written 5.8 years ago by ▴ 10
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5.8 years ago Fred Hutch (Recruiting) ▴ 40
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Job: Summer Studentships in Data Science & Computational Biology (2019) at the University of Cambridge
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6.3 years ago careers • 0
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6.8 years ago l.brown ▴ 10
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Python functionality feature request
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updated 6.8 years ago by 25k • written 6.8 years ago by • 0
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7.2 years ago EMBL Recruitment • 0
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7.3 years ago ematsen ▴ 20
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8.8 years ago clif.duhn • 0
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Job: Bioinformatics Programmer (Statistician) at University of California at San Francisco
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9.1 years ago • updated 8.8 years ago clif.duhn • 0
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Job: Harvard Medical School: Biomedical Data Scientist Postdoctoral Associate
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9.3 years ago Doe, Aimee ▴ 40
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Convertion of indexed bam file to tsv file format
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updated 9.6 years ago by 16k • written 9.6 years ago by • 0
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DEXSeq analysis of alternative splicing: error 'SAM optional field tag NH not found'
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9.6 years ago Fiona ▴ 70
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seq2pathway error on Mac OS X
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9.9 years ago careers • 0
23 results • Page 1 of 1
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Answer: Typo in the help of lmFit() by Gordon Smyth 52k
Thanks for the heads-up. > The _Details_ in the documentation of lmFit() still says that the default correlation is 0.75 Yes, you're righ…
Comment: Adding gene names as row annotations to an RNAseq heatmap made with ComplexHeatm by caroline.zanchi ▴ 10
Thank you ! ![enter image description here][1] In the end I did ```r rn2 <- select(org.Dm.eg.db, row.names(cent_expr_matrix), "GENENAME"…
Answer: Memory issue while using "quickcluster" and "computeSumFactors" functions on sin by James W. MacDonald 68k
The obvious solution is to use cloud computing, which is likely cheaper than getting more RAM for your computer.
Answer: Adding gene names as row annotations to an RNAseq heatmap made with ComplexHeatm by James W. MacDonald 68k
``` library(org.Dm.eg.db) rn <- select(org.Dm.eg.db, row.names(cent_expr_matrix), "SYMBOL","FLYBASE") ## ensure no NA values get propaga…
Comment: Discrepancies in normalised count data vs unnormalised by AMgroup • 0
Thank you for your explanation, that makes sense. Do you have any suggestions on how to deal with this issue? if it is an issue? especially…
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Answer: Adding gene names as row annotations to an RNAseq heatmap made with ComplexHeatm
Answer: Adding gene names as row annotations to an RNAseq heatmap made with ComplexHeatm
Deseq2 DE analysis of host-pathogen samples (model separately or jointly?)
Comment: Check removeBatchEffect effectiveness
Answer: Check removeBatchEffect effectiveness
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