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19 results • Page
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News:
Bioinfo-Core Conference Call, October 17, 2017 (11 am EDT USA, local times around world)
bioinfo-core
updated 2 days ago by
Ram
38k • written 5.6 years ago by
GenoMax
127k
5
votes
3
replies
374
views
News:
March 13-16: Virtual Nextflow and nf-core training event in 5 languages
nf-core
pipeline
Nextflow
updated 4 days ago by
Maxime Garcia
▴ 230 • written 4 weeks ago by
Matthias Zepper
3.4k
8
votes
2
replies
654
views
News:
Save time and money through improved onboarding of your NGS data scientists
NGS
data-analysis
updated 6 days ago by
Ram
38k • written 3.2 years ago by
David Langenberger
9.9k
0
votes
2
replies
294
views
News:
Course - Metagenomics, metatranscriptomics, and multi'omics for microbial community Studies
Metagenomics
Metatranscriptomics
Multiomics
updated 6 days ago by
Ram
38k • written 6 days ago by
carlopecoraro2
★ 2.3k
2
votes
2
replies
2.4k
views
News:
ENCODE 2015: Research Applications and Users Meeting
workshop
mouse-encode
encode
updated 2 days ago by
Ram
38k • written 7.8 years ago by
Alex Reynolds
34k
0
votes
2
replies
1.4k
views
News:
M.Phil Program in Bioinformatics
education
career
updated 6 days ago by
Ram
38k • written 7.4 years ago by
rrojha143
• 0
6
votes
1
reply
1.7k
views
News:
Are protein domains indivisible?
Athropy
Domains
Proteins
updated 2 days ago by
Ram
38k • written 7.8 years ago by
Deepak Tanwar
★ 4.2k
0
votes
0
replies
93
views
News:
ISMB-affiliated virtual tutorial on Neo4j/Cypher for life sciences
neo4j
cypher
graph
knowledge
16 hours ago by
Stephen
• 0
0
votes
0
replies
1.3k
views
News:
Webinar: Detailed understanding of NGS quality control and file formats
NGS
fastqc
Quality-control
updated 1 day ago by
Ram
38k • written 6.3 years ago by
Persistent LABS
▴ 750
2
votes
0
replies
2.2k
views
News:
The NAR annual Web Server Issue is here..
web-servers
updated 2 days ago by
Ram
38k • written 7.7 years ago by
Antonio R. Franco
★ 5.0k
0
votes
0
replies
454
views
News:
Training in Variant Analysis @NIH, January 28-31, 2020
Variant-Calling
next-gen
genome
updated 17 hours ago by
Ram
38k • written 3.3 years ago by
AABI
▴ 130
0
votes
0
replies
81
views
News:
Announcing workshop on Declarative Programming in Biology and Medicine (Seattle, Sept. 2023)
medicine
declmed
declarative
icfp
precision
18 hours ago by
Stephen
• 0
4
votes
0
replies
752
views
News:
The BioCompute Object App-a-thon starts on May 14!
standards
computation
pipeline
updated 2 days ago by
Ram
38k • written 3.9 years ago by
stephens_sarah
▴ 150
1
vote
0
replies
782
views
News:
Training in Variant Analysis @NIH, USA, April 16-19,2019
genotype
phenotype
updated 19 hours ago by
Ram
38k • written 4.1 years ago by
AABI
▴ 130
0
votes
0
replies
554
views
News:
FINAL CALL :: Online Course - A Practical Introduction to NGS Data Analysis (July 14-16, 2021)
NGS
workshop
updated 6 days ago by
Ram
38k • written 21 months ago by
David Langenberger
9.9k
0
votes
0
replies
90
views
News:
Course live online Introduction to Bayesian Analyses using R, May 8th-12th, 2023
bayesian
RProject
course
online
1 day ago by
Sole
• 0
0
votes
0
replies
1.9k
views
News:
MAY 10 DEADLINE: Apply to Penn State’s Grad Certificate in Applied Bioinformatics – 100% ONLINE
graduate-certificate
updated 3 days ago by
Ram
38k • written 8.0 years ago by
fiochettal
▴ 10
0
votes
0
replies
951
views
News:
Bioinfo-Core Conference Call, February 6th, 2018 (11 am EST USA and corresponding local times around the world)
bioinformatics-core
bioinfo-core
updated 2 days ago by
Ram
38k • written 5.1 years ago by
GenoMax
127k
0
votes
0
replies
98
views
News:
course - Reproducibility in Bioinformatics
Docker
Reproducibility
updated 15 hours ago by
Ram
38k • written 2 days ago by
carlopecoraro2
★ 2.3k
19 results • Page
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Recent Votes
Comment: in an RNA-seq experiment, what threshold would you use to define a set of expres
A: Multiple Blast Output Formats From 1 Blast Run
Multiple Blast Output Formats From 1 Blast Run
Answer: query UCSC db for CDS coordinates (Gencode)
GNU Parallel Block Issues
how to get promoter coordinates?
C: BAM to FASTQ picard or samtools
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Answer: LIMMA calculates identical adj.P.Val for different proteins from proteomics
by
ATpoint
70k
Please google what the Benjamini-Hochberg correction is and what it does. In a nutshell, it corrects for multiple testing, outputting these…
Comment: query UCSC db for CDS coordinates (Gencode)
by
GenoMax
127k
> it's hard to discover what's new, what already exists, what's the > purpose of each tool . samtools, gatk etc... have a release page on >…
Comment: query UCSC db for CDS coordinates (Gencode)
by
Pierre Lindenbaum
153k
1) it's fun :-D 2) there's is a bunch of amazing tools under https://hgdownload.soe.ucsc.edu/admin/exe/ but it's hard to discover what's …
Comment: how to get to a VCF from bam files
by
GenoMax
127k
If you only have BAM files you need in the directory you are working in then `*.bam` would be ok. Most people working with human samples ca…
Answer: query UCSC db for CDS coordinates (Gencode)
by
Maximilian Haeussler
★ 1.5k
The UCSC command line tool for this operation is "genePredToBed". To break a BED into one line per exon, use "bedToExons". The tools can be…
Comment: in an RNA-seq experiment, what threshold would you use to define a set of expres
by
i.sudbery
16k
Try: https://bioinformatics.stackexchange.com/questions/687/what-methods-are-available-to-find-a-cutoff-value-for-non-expressed-genes-in-rn…
Answer: GetBM - GERP conservation score for GRCm39
by
Ben_Ensembl
★ 2.2k
Hi Kyle, The GERP scores are not available through BioMart (nor the Ensembl REST API). The most efficient method for retrieving these scor…
Comment: how to get to a VCF from bam files
by
Human
• 0
Ok, but in general this approach would work? And why would I not want to use all the bam and Bam.bai files? Why would I subset it?
Comment: in an RNA-seq experiment, what threshold would you use to define a set of expres
by
ATpoint
70k
This has been asked many times before. Please google for 'fpkm cutoff biostars', 'expressed cutoff biostars' or similar queries. With some …
Answer: GetBM - GERP conservation score for GRCm39
by
Mike Smith
★ 2.0k
You can try using `searchAttributes()` which at least means you don't have to look at every possible attribute hoping to find the one you n…
Answer: Calculation method of RMSMappingQuality
by
zhoujun.nmu
• 0
Hello, Have you solved this probelm?
Comment: PCA in gene expression
by
ali
• 0
Thanks for your help Dear i.sudbery I have been working on a project related to the correlation between genetic mutations and drug resis…
Answer: Using STAR for RNA seq-alignment.
by
LChart
2.2k
`genom_dir= ${pKS}/"star_index"` should read `genom_dir="${pKS}/star_index"` (n.b., no space after the =); inputFile and finput also need t…
Comment: RepeatMasker species error
by
jianzhi0515
• 0
check out this biostars question: it solved this issue of my repeat marker: https://www.biostars.org/p/488836/
Comment: No Passing Variants GATK
by
brandnewatthis
• 0
I ended up realizing it was a problem with bcftools - I didn't put my bgzip my vcf files therefore it couldn't read it. It looks to be fixe…
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