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BiomaRt connection error: Could not connect to mysql database ensembl_mart_104
biomaRt
connection
sql
updated 11 months ago by
Joan Miró
• 0 • written 11 months ago by
Anand
▴ 10
2
votes
4
replies
356
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MakeOrgPackageFromNCBI SQL error
MakeOrgPackageFromNCBI
NCBI
SQL
AnnotationForge
updated 2.0 years ago by
James W. MacDonald
59k • written 2.0 years ago by
chefer
• 0
2
votes
0
replies
716
views
Job:
Full-time bioinformatics instructor position at Fred Hutch
R
shell
Python
SQL
Job
4.3 years ago
ematsen
▴ 20
0
votes
0
replies
1.2k
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Job:
Harvard Medical School: Biomedical Data Scientist Postdoctoral Associate
biomedical informatics
data science
python
SQL
Job
6.3 years ago
Doe, Aimee
▴ 40
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Comment: CPM after RUVseq
by
James W. MacDonald
59k
Also, you might be confused about something. CPM is counts/million counts, which *uses library size to scale normalize* and logCPM is just…
Comment: CPM after RUVseq
by
James W. MacDonald
59k
You shouldn't use CPM or logCPM for any of the steps! To use `RUVr` you need to fit a preliminary model using `edgeR`, which takes counts a…
Comment: CPM after RUVseq
by
Jess
• 0
Thank you James! It hadn't occurred to me to input CPM rather than logCPM which is why my df$NormalizedCounts didn't exceed 17ish in valu…
Answer: RPX PXDataset error
by
Laurent Gatto
1.5k
- From the URL in the error, it looks like you have the latest (or a recent) `rpx` version. It is generally recommended to add the output o…
Answer: Package name already exists due to previous issue
by
shepherl
3.1k
This has been resolved. There needed to be a manual intervention by the core team to remove the old issue from the issue tracker database.…
Votes
Answer: CPM after RUVseq
Comment: Merging two plated in R
Answer: Merging two plated in R
Answer: Merging two plated in R
A: Can we use glmQLFit instead of glmFit and then glmLRT in edgeR
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