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100
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36
replies
27k
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33 follow
Forum: List of cloud genomics companies
cloud-genomics
updated 1 day ago by ▴ 20 • written 9.4 years ago by ★ 3.6k
4
votes
2
replies
163
views
Forum: advice on course selection for a bioinformatics career.
career
updated 2 days ago by 97k • written 2 days ago by • 0
0
votes
1
reply
160
views
Forum: Graduate in molecular biology and genetics
biology genetics Molecular
updated 14 days ago by 127k • written 14 days ago by • 0
3
votes
1
reply
181
views
Forum: Open problems in genomics 2023
genomics pangenomics
updated 14 days ago by 127k • written 14 days ago by 4.6k
5
votes
3
replies
330
views
Forum: Someone posted the same question to StackOverflow and Biostars. The results will blow your mind.
meta
updated 15 days ago by 20k • written 16 days ago by ▴ 60
18
votes
10
replies
736
views
Forum: Rust bioinformatics projects ideas
projects scRNA-seq RNA-seq Rust
17 days ago by bompipi95 ▴ 120
1
vote
0
replies
132
views
Forum: Penetrance versus heritability
penetrance heritability
17 days ago by tacrolimus ▴ 110
10
votes
15
replies
825
views
Forum: How should reference genome fasta files be distributed by UCSC?
reference-genome fasta ucsc-genome-browser
22 days ago by Maximilian Haeussler ★ 1.5k
8
votes
4
replies
371
views
Forum: Implementing FAIR data principles to a bioinformatics lab
data
updated 28 days ago by 21k • written 28 days ago by ★ 1.5k
0
votes
0
replies
161
views
Forum: NGSrich - hg38
Coverage NGSrich
29 days ago by RK • 0
5
votes
5
replies
498
views
Forum: Bioinformatics - how to start?
molecular-biology
updated 5 weeks ago by ★ 23k • written 5 weeks ago by • 0
8
votes
8
replies
1.0k
views
7 follow
Forum: A Computer Scientist who wants to start Bioinformatics
computer-science books resources ngs
updated 7 weeks ago by ▴ 10 • written 3 months ago by • 0
7
votes
3
replies
551
views
Forum: Find a research paper for reproducing the results
research paper
updated 9 weeks ago by 127k • written 10 weeks ago by ★ 2.5k
0
votes
1
reply
328
views
Forum: Gene ontology vs Gene set enrichment
set enrichment GSEA ontology Gene analysis gene
updated 3 months ago by ★ 1.7k • written 3 months ago by • 0
6
votes
12
replies
834
views
Forum: How to decide when to have local hardware vs cloud computing?
hardware computational-resources cloud
3 months ago by Lluís R. ★ 1.2k
15
votes
10
replies
1.6k
views
6 follow
Forum: BioStars and ChatGPT
ChatGPT Meta GPT
updated 3 months ago by 2.2k • written 3 months ago by ▴ 320
18
votes
10
replies
1.1k
views
7 follow
Forum: Add artificial intelligence training related disclaimers to your profile
licensing AI
updated 3 months ago by 52k • written 3 months ago by 97k
0
votes
2
replies
2.7k
views
Forum: Discussion question: Cutoff for SNP phylogeny
Phylogenetics SNP
3 months ago by SushiRoll ▴ 100
7
votes
2
replies
372
views
Forum: Improvement of Wikipedia articles with bioinformatic subjects
Wikipedia Bioinformatics
8 weeks ago by Matthias Zepper 3.4k
5
votes
4
replies
527
views
Forum: Best BAM viewer in 2022
bam sam tool-recommendation
3 months ago by Cornelius ▴ 60
1.2k
votes
205
replies
48k
views
107 follow
Forum: What Are The Most Common Stupid Mistakes In Bioinformatics?
software
updated 9 weeks ago by ▴ 250 • written 12.0 years ago by 21k
8
votes
4
replies
522
views
Forum: GTF files from Ensembl Releases 105 and 106 unsorted
Ensembl bug GTF
4 months ago by dlaehnemann ▴ 10
10
votes
13
replies
1.4k
views
8 follow
Forum: Does a PhD or work experience set you up better to do bioinformatics work in industry?
advice industry phd
updated 4 months ago by 5.9k • written 4 months ago by ▴ 10
0
votes
2
replies
533
views
Forum: Best Phd Programs in Usa ( Computational Biology)
computational-biology drug-design
updated 3 months ago by 38k • written 5 months ago by • 0
4
votes
5
replies
586
views
6 follow
Forum: Which Bioinformatics Master's degree is better?
bioifnormatics masters
updated 4 months ago by ▴ 100 • written 4 months ago by • 0
1
vote
1
reply
431
views
Forum: Package is not available (for R version XXX)？ Manually download and install R packages
installation package R
updated 11 weeks ago by 4.6k • written 5 months ago by ▴ 30
3
votes
6
replies
551
views
Forum: How to become a moderator and other ways of contributing to Biostars
biostars
5 months ago by iraun 5.9k
2
votes
3
replies
453
views
Forum: Experiences with different cloud computing resources / providers
cloud pipeline rna-seq alignment
updated 6 months ago by 21k • written 6 months ago by ▴ 10
19
votes
13
replies
1.3k
views
8 follow
Forum: Can bioinformatics Phds be completely or almost completely done remotely?
PhD
updated 6 months ago by 5.9k • written 6 months ago by ▴ 40
8
votes
13
replies
1.4k
views
8 follow
Forum: Commercial software for genomics / NGS / bioinformatics
NGS software genomics
updated 6 months ago by • 0 • written 6 months ago by ★ 1.2k
4
votes
4
replies
784
views
Forum: Bioinformatics analogies
Bioinformatics
updated 6 months ago by 97k • written 6 months ago by ▴ 40
2
votes
4
replies
664
views
Forum: Is low N in-vivo research a blind spot for RNA-seq?
power metascience statistics sample size
updated 6 months ago by 16k • written 6 months ago by ▴ 210
2
votes
4
replies
491
views
Forum: strand specific data
strand DNA RNA specific coding
6 months ago by upasana • 0
3
votes
0
replies
366
views
Forum: Let's build a list of Drug Databases including Tyrosine Kinase Inhibitors: Update 1
pharmacology RTK IC50 TKI database
7 months ago by Vincent Laufer ★ 2.5k
7
votes
14
replies
1.5k
views
7 follow
Forum: Why isn't GWAS used in oncology?
gwas association oncology studies somatic cancer
updated 7 months ago by 2.2k • written 7 months ago by ▴ 80
4
votes
4
replies
898
views
Forum: Cloud Computing Services available?
resources Cloud-Computing
updated 3 months ago by 38k • written 8 months ago by ★ 2.3k
2
votes
7
replies
807
views
Forum: Build a Visual Analytic App for Rna-seq data [Ideas Accepted]
R plot rna-seq count
updated 8 months ago by 38k • written 8 months ago by ▴ 20
6
votes
3
replies
905
views
Forum: Best formats for storing large amounts of data for random access
file-formats databases
updated 8 months ago by 3.4k • written 8 months ago by 16k
0
votes
1
reply
333
views
Forum: Add an intercept column to a bed file
plink intercept bed
updated 8 months ago by 70k • written 8 months ago by • 0
4
votes
2
replies
1.5k
views
Forum: Best resource for getting a person with a Math/Comp Sci background the right amount of Biology knowledge
biology teaching
updated 3 months ago by 38k • written 8 months ago by ★ 2.5k
0
votes
0
replies
355
views
Forum: Normalization of ChIP-seq _ Spikein normalization + RPGC
ChIP-seq normalization RPGC Spikein Normalization
8 months ago by goddy93 • 0
3
votes
1
reply
394
views
Forum: Would an automated NGS analytics platform help research?
ngs data-analysis
updated 8 months ago by 38k • written 8 months ago by • 0
5
votes
2
replies
618
views
Forum: Skills for industry career in bioinformatics
industry
updated 8 months ago by 11k • written 8 months ago by ▴ 10
9
votes
6
replies
750
views
Forum: Programming languages in industry
programming language
updated 8 months ago by 9.5k • written 8 months ago by ▴ 30
2
votes
6
replies
743
views
Forum: Getting the best of RNA-Seq
RNA-Seq isoform gene expression
8 months ago by Antonio R. Franco ★ 5.0k
1
vote
0
replies
360
views
Forum: Not all Over Representation Analyses are the same!
clusterProfiler Analysis fisher hypergeometric ORA Pathway
9 months ago by Francesco ▴ 20
3
votes
2
replies
526
views
Forum: From protein-protein interaction networks to..
limitations tools knowledge computational workflow
9 months ago by BioInfoBeginner ▴ 40
0
votes
0
replies
407
views
Forum: Best practices for merging vcfs with different positions + different samples?
vcf bcftools genotypes
updated 3 months ago by 38k • written 9 months ago by ▴ 30
24
votes
6
replies
4.2k
views
6 follow
Forum: Awk in Bioinformatics
perl awk shell
updated 3 months ago by 38k • written 4.6 years ago by ★ 9.3k
7
votes
8
replies
1.0k
views
Forum: Can we lock posts related to merging vcf files?
vcf
updated 3 months ago by 38k • written 9 months ago by 2.6k
1,000 results • Page 1 of 20
Recent Votes
Answer: Informations for gene summary are missing in eutils api of NCBI?
A: where to download ERCC RNA spike ins fasta and gff file?
A: The RNA-Seq data input for WGCNA in terms of gene co-expression network construc
The RNA-Seq data input for WGCNA in terms of gene co-expression network construction
Answer: Informations for gene summary are missing in eutils api of NCBI?
Comment: PCA in gene expression
Installing an updated R version (>=4.0) using conda
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Recent Replies
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…
Comment: ExomeDepth installation error by jared.andrews07 ★ 14k
Again, no idea, I haven't used this tool. You will at minimum need a reference to compare your single bam file to, so I expect you'd need a…
Comment: No Passing Variants GATK by Pierre Lindenbaum 153k
> , or if the GATK error "unidentified variable MQRankSum" is causing this try again without MQRankSum ...
Comment: PCA in gene expression by i.sudbery 16k
The noise on your differential expression is exactly the point. If samples are noise, then genes should be called differential.
Answer: Make a S4/S3 object with my clinical data by ATpoint 70k
Use a SummarizedExperiment. It's assay-agnostic so you can give any assay eith features/genes/observations as rows and samples at columns. …
Comment: TSS of protein coding genes by ConvolutedGenome ▴ 10
I seeee Thank you for your input :) !!
Comment: how to get to a VCF from bam files by Ram 38k
Read my script - change your bcftools to output VCF, not BCF. File size (as long as it's >0) is not an indicator of anything significant. …
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