User: mforde84

gravatar for mforde84
mforde841.3k
Reputation:
1,270
Status:
Trusted
Location:
Last seen:
1 year, 1 month ago
Joined:
4 years, 2 months ago
Email:
m*******@gmail.com

Posts by mforde84

<prev • 237 results • page 1 of 24 • next >
0
votes
0
answers
223
views
0
answers
Planned comparison with a ridge regression.
... I have a data set that consists of 1 response variables (e.g., response time) and 20-30 predictors variables with a mixture of categorical and continuous data. I code the categorical data into dummy variables, split the data into training and test sets, then perform a ridge regression on the trainin ...
contrast regression written 13 months ago by mforde841.3k
0
votes
0
answers
1.1k
views
0
answers
Comment: C: [IMMEDIATE JOB OPENING] HPC Systems Administrator, Center for Research Informati
... Argonne did a report on this to those interested: https://science.energy.gov/~/media/ascr/pdf/program-documents/docs/Magellan_Final_Report.pdf It's a bit dated admittedly. However, overall operating costs for cloud are still likely 10x+ more expensive then traditional HPC environments. Sure, CRI ha ...
written 22 months ago by mforde841.3k
0
votes
0
answers
1.1k
views
0
answers
Comment: C: [IMMEDIATE JOB OPENING] HPC Systems Administrator, Center for Research Informati
... I mean were talking about tens of millions of proc hours, frequently with large memory requirements, sql services, research grade gpus, petabytes of storage, etc. I doubt AWS would even be competitive, and even if they were close youd end up spending enough renting the infrastructure, that you could ...
written 22 months ago by mforde841.3k
0
votes
0
answers
1.1k
views
0
answers
Comment: C: [IMMEDIATE JOB OPENING] HPC Systems Administrator, Center for Research Informati
... but really, and not drinking the koolaid over here, uchicago is a great place to work. fantastic culture with chill environment and meaningful work. would highly recommend to anyone. i do think that management structure can be a little flat, but that's not always a bad thing. it's just a different t ...
written 22 months ago by mforde841.3k
0
votes
0
answers
1.1k
views
0
answers
Comment: C: [IMMEDIATE JOB OPENING] HPC Systems Administrator, Center for Research Informati
... Sure, people do it. I think you definitely pay for it above and beyond whats really required to provide HPC services to a group of researchers. ...
written 22 months ago by mforde841.3k
0
votes
0
answers
1.1k
views
0
answers
Comment: C: [IMMEDIATE JOB OPENING] HPC Systems Administrator, Center for Research Informati
... No tension really. I believe CRI is headed by Bob as well, if I'm not mistaken. Wasn't always too clear on how upper leadership actually works. Just two different groups, services, and ways to orchestrate them. Would be nice to integrate more with GDC as I think it's a valuable resource, and I know ...
written 22 months ago by mforde841.3k
1
vote
0
answers
1.3k
views
0
answers
Comment: C: How to filter normalized RNA-Seq transcripts for the purpose of predicting a con
... General speaking I'd filter all genes with 0 sum counts, and average CPM/TPM/RPKM/FPKM less than 1. Then normalize filtered counts for library size and between subject variance. Limma voom is very good for this application and can incorporate quality weights for sequencing libraries. Then for regres ...
written 2.6 years ago by mforde841.3k
0
votes
1
answer
964
views
1
answer
Job: Bioinformatics role becoming available at University of Chicago
... Hi everyone, I'm transitioning to a new role at the University of Chicago, and looking to help find a replacement for my bioinformatics position within the Department of Radiation Oncology. We work primarily with clinical sequencing and microarray of patient samples, immortalized cell lines, and xe ...
genome ngs microarray job written 2.8 years ago by mforde841.3k • updated 2.8 years ago by ankur.chaturvedi1719870
2
votes
0
answers
766
views
0
answers
Comment: C: How to select tumor GO terms, if I did not find any in my biological process GO
... There's a lot of biological processes implicated in tumor biology. GO isn't really going to tell you which ones are tumor biology or not (except in a small number of situations). You need to be familiar with the literature and understand which biological processes are implicated in tumor biology, as ...
written 2.9 years ago by mforde841.3k
0
votes
1
answer
2.1k
views
1
answers
Comment: C: Merge fastq reads for several samples
... maybe im just being too literal here, but he seems to be saying that he's merging reads from two independent runs. and if thats the case, then he probably should be treating each run as a technical replicate, or consider merging after correcting for batch effects. ...
written 2.9 years ago by mforde841.3k

Latest awards to mforde84

Popular Question 22 months ago, created a question with more than 1,000 views. For Hypergeometric GO analysis? and network diagram of generated GO terms
Popular Question 22 months ago, created a question with more than 1,000 views. For Quick question about analysis of log2 RMA data
Popular Question 22 months ago, created a question with more than 1,000 views. For Help with linear regression model design
Popular Question 22 months ago, created a question with more than 1,000 views. For Quantile normalizing prior to or after TPM scaling?
Popular Question 22 months ago, created a question with more than 1,000 views. For Gene level from transcript level expression estimate.
Scholar 22 months ago, created an answer that has been accepted. For A: SNP analysis based on RNAseq data using GATK PIPELINE
Scholar 22 months ago, created an answer that has been accepted. For A: Downloading normalized data from GEO
Popular Question 2.5 years ago, created a question with more than 1,000 views. For Declining quality of biostars
Popular Question 2.5 years ago, created a question with more than 1,000 views. For Merging expression data from multiple platforms
Popular Question 2.5 years ago, created a question with more than 1,000 views. For Resources for gene signature creation
Popular Question 2.5 years ago, created a question with more than 1,000 views. For Hypergeometric GO analysis? and network diagram of generated GO terms
Popular Question 2.5 years ago, created a question with more than 1,000 views. For Microarray control probes
Popular Question 2.5 years ago, created a question with more than 1,000 views. For Quick question about analysis of log2 RMA data
Popular Question 2.5 years ago, created a question with more than 1,000 views. For Help with linear regression model design
Popular Question 2.5 years ago, created a question with more than 1,000 views. For Genes associated with GO term
Commentator 2.5 years ago, created a comment with at least 3 up-votes. For C: Alignment time of TopHat (v.2.1.1) increases while increasing threads (using mul
Commentator 2.5 years ago, created a comment with at least 3 up-votes. For C: Professor assign me some tasks, gene ontology sucks. Anyone please guide me, i a
Popular Question 2.6 years ago, created a question with more than 1,000 views. For Declining quality of biostars
Teacher 2.8 years ago, created an answer with at least 3 up-votes. For A: Heatmaps: Why and How to use them
Guru 2.9 years ago, received more than 100 upvotes.
Scholar 3.0 years ago, created an answer that has been accepted. For A: SNP analysis based on RNAseq data using GATK PIPELINE
Commentator 3.1 years ago, created a comment with at least 3 up-votes. For C: Alignment time of TopHat (v.2.1.1) increases while increasing threads (using mul
Supporter 3.1 years ago, voted at least 25 times.
Popular Question 3.2 years ago, created a question with more than 1,000 views. For Declining quality of biostars
Scholar 3.2 years ago, created an answer that has been accepted. For A: SNP analysis based on RNAseq data using GATK PIPELINE

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 860 users visited in the last hour