User: Chris Fields

gravatar for Chris Fields
Chris Fields1.9k
Reputation:
1,870
Status:
Trusted
Location:
University of Illinois Urbana-Champaign
Twitter:
cjfields
Scholar ID:
Google Scholar Page
Last seen:
6 hours ago
Joined:
8 years, 1 month ago
Email:
c********@gmail.com

I work a lot. I'm very sleepy.

Posts by Chris Fields

<prev • 234 results • page 1 of 24 • next >
0
votes
0
answers
170
views
0
answers
Job: Visiting Research Specialist in Life Science - University of Illinois Urbana-Champaign
... The Roy J. Carver Biotechnology Center has an opening for a Visiting Research Specialist in Life Science in HPCBio. The primary function of the position is to process and analyze 'omics data produced by customers of the HPCBio group. This position is a one year commitment with the potential for rene ...
assembly python chip-seq job R rna-seq written 19 days ago by Chris Fields1.9k
0
votes
2
answers
254
views
2
answers
Comment: C: Anyone knows how to create a figure like this?
... Of course, but it seems this seldom happens. I'm guessing it's b/c doing so requires the submitter to request this of a moderator? ...
written 20 days ago by Chris Fields1.9k
0
votes
2
answers
254
views
2
answers
Comment: A: Anyone knows how to create a figure like this?
... It's not a 2D plot, it's 3D. Maybe try plots allowing 3 axes including categorical data? **EDIT**: nevermind, I see that a link was added above by https://www.biostars.org/u/25721/. We really need a way to promote in-line replies as the answer. ...
written 20 days ago by Chris Fields1.9k
0
votes
0
answers
124
views
0
answers
Comment: C: How to best upload bam files in R for analysis of alternative splicing
... The question to me appears to be asking how to upload BAMs into R, not what packages in R are others using for alternative splicing. ...
written 5 weeks ago by Chris Fields1.9k
0
votes
2
answers
261
views
2
answers
Comment: C: assembly of mouse transcriptome from BAM file
... Should note, Trinity also has a [reference-guided mode][1]. I agree re: reference-guided assemblies, with one caveat: this depends on the quality of the reference genome assembly; I wouldn't recommend this with a poor quality genome assembly, where genes may be fragmented. With mouse this isn't an ...
written 8 weeks ago by Chris Fields1.9k
2
votes
0
answers
145
views
0
answers
News: GCCBOSC 2018: A Bioinformatics Community Conference Call for Abstracts
... GCCBOSC 2018: A Bioinformatics Community Conference Call for Abstracts - **Dates**: June 25-30, 2018 - **Location**: Reed College, Portland, OR - **GCCBOSC website**: https://gccbosc2018.sched.com/ - **BOSC website**: https://www.open-bio.org/wiki/BOSC_2018 - **Email BOSC organizers**: [bosc@open- ...
galaxy community conference news gcc bosc written 8 weeks ago by Chris Fields1.9k
0
votes
1
answer
219
views
1
answers
Comment: C: Trinity transcriptome quality assessment
... It's a transcriptome, so you may not get the complete set of BUSCOs for your taxonomic group (this only represents what is expressed, unlike a genome). The key is using this to compare various assembly versions (or assemblies using different tools). They both are fairly comparable but the `--jac ...
written 9 weeks ago by Chris Fields1.9k
0
votes
1
answer
219
views
1
answers
Answer: A: Trinity transcriptome quality assessment
... https://www.biostars.org/u/44965/ have you tried any of the other assessment recommendations from the Trinity docs? https://github.com/trinityrnaseq/trinityrnaseq/wiki/Transcriptome-Assembly-Quality-Assessment I recommend running BUSCO for both, but the others are well worth checking into (TransRa ...
written 9 weeks ago by Chris Fields1.9k
0
votes
5
answers
1.2k
views
5
answers
Comment: C: High coverage bacterial genome reads causing spurious assemblies
... Brian, would you know whether anyone has evaluated whether bbnorm/khmer or other normalization techniques cause mis-assemblies? Titus Brown mentioned a few years ago that khmer may not be the best for highly repetitive genomes (e.g. plant, but some bacteria fall into this category), and I can see t ...
written 10 weeks ago by Chris Fields1.9k
0
votes
2
answers
309
views
2
answers
Comment: C: What kind of sequences I have, haploid or diploid?
... Good point; I assumed structural variant but you're likely correct the question was really about SNPs (or maybe small indels). ...
written 12 weeks ago by Chris Fields1.9k

Latest awards to Chris Fields

Scholar 12 weeks ago, created an answer that has been accepted. For A: What is difference between reads and tags?
Teacher 12 weeks ago, created an answer with at least 3 up-votes. For A: Bioperl Has Different Behaviours In Parsing Blast And Blast+ Result
Scholar 7 months ago, created an answer that has been accepted. For A: What is difference between reads and tags?
Scholar 12 months ago, created an answer that has been accepted. For A: What is difference between reads and tags?
Teacher 12 months ago, created an answer with at least 3 up-votes. For A: Bioperl Has Different Behaviours In Parsing Blast And Blast+ Result
Commentator 19 months ago, created a comment with at least 3 up-votes. For C: Bwa mem is exiting with segmentation fault for large contigs (> 0.4Mbp)
Teacher 21 months ago, created an answer with at least 3 up-votes. For A: Bioperl Has Different Behaviours In Parsing Blast And Blast+ Result
Scholar 21 months ago, created an answer that has been accepted. For A: What is difference between reads and tags?
Scholar 2.2 years ago, created an answer that has been accepted. For A: What is difference between reads and tags?
Guru 2.3 years ago, received more than 100 upvotes.
Centurion 2.4 years ago, created 100 posts.
Scholar 2.4 years ago, created an answer that has been accepted. For A: What is difference between reads and tags?
Teacher 2.4 years ago, created an answer with at least 3 up-votes. For A: Bioperl Has Different Behaviours In Parsing Blast And Blast+ Result
Teacher 2.4 years ago, created an answer with at least 3 up-votes. For A: Bioperl Has Different Behaviours In Parsing Blast And Blast+ Result
Scholar 2.4 years ago, created an answer that has been accepted. For A: What is difference between reads and tags?
Appreciated 2.6 years ago, created a post with more than 5 votes. For A: What is the difference between GEO and SRA ncbi databases?
Good Answer 2.6 years ago, created an answer that was upvoted at least 5 times. For A: What is the difference between GEO and SRA ncbi databases?
Scholar 2.6 years ago, created an answer that has been accepted. For A: What is difference between reads and tags?
Teacher 3.0 years ago, created an answer with at least 3 up-votes. For A: Bioperl Has Different Behaviours In Parsing Blast And Blast+ Result
Good Answer 3.4 years ago, created an answer that was upvoted at least 5 times. For A: What is the difference between GEO and SRA ncbi databases?
Scholar 3.7 years ago, created an answer that has been accepted. For A: What is the difference between GEO and SRA ncbi databases?
Teacher 3.8 years ago, created an answer with at least 3 up-votes. For A: Bioperl Has Different Behaviours In Parsing Blast And Blast+ Result
Commentator 4.0 years ago, created a comment with at least 3 up-votes. For C: Bwa mem is exiting with segmentation fault for large contigs (> 0.4Mbp)
Appreciated 4.0 years ago, created a post with more than 5 votes. For A: What is the difference between GEO and SRA ncbi databases?
Scholar 4.0 years ago, created an answer that has been accepted. For A: What is the difference between GEO and SRA ncbi databases?

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1079 users visited in the last hour