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Job: Summer Studentships in Data Science (Computational Cancer Biology) at the University of Cambridge
R python deep learning machine learning cancer genomics Job
7.1 years ago Shamith.Samarajiwa ▴ 180
5
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23
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6.2k
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Convertion of indexed bam file to tsv file format
python samtools
updated 8.5 years ago by 16k • written 8.5 years ago by • 0
3
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4
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1.6k
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seq2pathway error on Mac OS X
seq2pathway error python mac os x
8.6 years ago termanini ▴ 10
2
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0
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1.2k
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Job: Full-time bioinformatics instructor position at Fred Hutch
R shell Python SQL Job
6.2 years ago ematsen ▴ 20
2
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4
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1.1k
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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 4.7 years ago by ▴ 30 • written 4.7 years ago by ▴ 10
1
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0
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793
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Job: Bioconductor Core developers group opening
R cloud github python git
20 months ago Vincent J. Carey, Jr. 6.7k
1
vote
1
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777
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Python functionality feature request
python bioconductor
updated 5.7 years ago by 25k • written 5.7 years ago by • 0
1
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2
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1.3k
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Load data with rhdf5
rhdf5 python
updated 14 months ago by • 0 • written 4.0 years ago by • 0
1
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2
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1.5k
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DEXSeq Python script dexseq_prepare_annotation.py unable to process my .gtf file
dexseq python gtf gff3 annotation
4.0 years ago Raito92 ▴ 60
0
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939
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Job: Bioinformatics Analyst II, Genomics Shared Resource (Seattle, WA)
GENOMICS BIOINFORMATICS SEATTLE R PYTHON Job
4.7 years ago Fred Hutch (Recruiting) ▴ 40
0
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829
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Job: Senior Data Engineer | Poland | remote
AWS BigData Engineer python
3.0 years ago Ewa • 0
0
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1
reply
889
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Change the interval of bed file
mappability bed python
updated 2.3 years ago by 65k • written 2.3 years ago by • 0
0
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1
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805
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python and R
snpeff python tophat r RNAseq123
updated 2.7 years ago by ★ 3.9k • written 2.7 years ago by • 0
0
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1.6k
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Job: Calling all Clinical Genomic Scientist
computational biology genomics genetics Python java Job
8.8 years ago careers • 0
0
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2
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710
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TnSeq as ZINB? Alternatives in R?
DESeq2 R edgeR Python TnSeq
updated 16 months ago by • 0 • written 17 months ago by ▴ 90
0
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0
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1.5k
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DEXSeq analysis of alternative splicing: error 'SAM optional field tag NH not found'
DEXSeq splicing python SAM
8.5 years ago Fiona ▴ 70
0
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0
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1.9k
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Job: Harvard Medical School: Biomedical Data Scientist Postdoctoral Associate
biomedical informatics data science python SQL Job
8.2 years ago Doe, Aimee ▴ 40
0
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0
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1.8k
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Job: Bioinformatics Programmer (Statistician) at University of California at San Francisco
R bioinformatician job Perl Python statistics Job
8.0 years ago • updated 7.7 years ago clif.duhn • 0
0
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0
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1.4k
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Job: Data Scientist / Bioinformatician / Statistician at University of California
R python stats bioinformatics perl Job
7.7 years ago clif.duhn • 0
0
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1.2k
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Job: Bioinformatics Engineer / Data Analyst
python bio ngs linux Job
6.1 years ago EMBL Recruitment • 0
0
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0
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1.0k
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Job: 2 Postdoc Positions in computational epigenetics and non-coding RNA analysis (#CNPD08)
bioinformatician job rna-seq chipseq gsea python Job
5.7 years ago l.brown ▴ 10
0
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0
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1.0k
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Job: Bioinformatics Scientist II
bioinformatics scientist python computational Job
5.2 years ago careers • 0
0
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0
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842
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Job: Summer Studentships in Data Science & Computational Biology (2019) at the University of Cambridge
R Python Computational-Biology Cancer Job
5.1 years ago Shamith.Samarajiwa ▴ 180
23 results • Page 1 of 1
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Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by Alexandre • 0
Hello James, Thank you very much for your answer and taking the time to read my post. I understand your remark, but isn't the approach o…
Comment: PCA plot suggestions by JKim • 0
cross post: https://www.biostars.org/p/9593486/
Answer: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by James W. MacDonald 65k
You cannot correct for technical variability due to batch if samples are nested in batch. The technical and biological differences are comp…
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2) by James W. MacDonald 65k
You will need to show some reproducible code for anybody to track this down. Please note that `DESeq2` has been used by thousands of people…
Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by Alexandre • 0
My code for the sessionInfo() . If the pictures are too big, I will downsize them. THank you again for reading my post ! ```r > sessionInf…
Votes
Answer: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
Answer: Use of negative binomial model for exponential decay rate estimation using DESeq
C: null model and DEXSeqDataSet object in DEXSEQ
A: Are published RNA seq data analyses often wrong in calculating p-values and FDR?
A: How to explain how DESeq2 works to someone with zero bioinformatics background?
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