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1.2k
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202
replies
46k
views
107 follow
Forum: What Are The Most Common Stupid Mistakes In Bioinformatics?
software Forum
updated 3 days ago by 37k • written 11.7 years ago by 21k
8
votes
4
replies
233
views
Forum: GTF files from Ensembl Releases 105 and 106 unsorted
Ensembl bug GTF
4 days ago by dlaehnemann ▴ 10
10
votes
13
replies
790
views
8 follow
Forum: Does a PhD or work experience set you up better to do bioinformatics work in industry?
advice industry phd
updated 15 days ago by 5.6k • written 16 days ago by ▴ 10
0
votes
2
replies
370
views
Forum: Best Phd Programs in Usa ( Computational Biology)
bioinformatics computational-biology drug-design
updated 24 days ago by ▴ 100 • written 8 weeks ago by • 0
4
votes
5
replies
393
views
6 follow
Forum: Which Bioinformatics Master's degree is better?
bioifnormatics masters
updated 25 days ago by ▴ 100 • written 25 days ago by • 0
99
votes
36
replies
26k
views
32 follow
Forum: List of cloud genomics companies
cloudgenomics Forum
updated 12 days ago by • 0 • written 9.0 years ago by ★ 3.6k
3
votes
6
replies
379
views
Forum: How to become a moderator and other ways of contributing to Biostars
biostars
7 weeks ago by iraun 5.6k
2
votes
3
replies
322
views
Forum: Experiences with different cloud computing resources / providers
cloud pipeline rna-seq alignment
updated 10 weeks ago by 21k • written 10 weeks ago by ▴ 10
19
votes
13
replies
898
views
8 follow
Forum: Can bioinformatics Phds be completely or almost completely done remotely?
PhD
updated 10 weeks ago by 5.6k • written 11 weeks ago by ▴ 30
8
votes
13
replies
965
views
8 follow
Forum: Commercial software for genomics / NGS / bioinformatics
NGS software genomics
updated 11 weeks ago by • 0 • written 11 weeks ago by ★ 1.1k
4
votes
4
replies
589
views
Forum: Bioinformatics analogies
Bioinformatics
updated 11 weeks ago by 95k • written 12 weeks ago by ▴ 40
2
votes
4
replies
520
views
Forum: Is low N in-vivo research a blind spot for RNA-seq?
power metascience statistics sample size
updated 12 weeks ago by 15k • written 12 weeks ago by ▴ 210
2
votes
4
replies
346
views
Forum: strand specific data
strand DNA RNA specific coding
12 weeks ago by upasana • 0
3
votes
0
replies
218
views
Forum: Let's build a list of Drug Databases including Tyrosine Kinase Inhibitors: Update 1
pharmacology RTK IC50 TKI database
3 months ago by Vincent Laufer ★ 2.5k
7
votes
14
replies
1.3k
views
7 follow
Forum: Why isn't GWAS used in oncology?
gwas association oncology studies somatic cancer
updated 3 months ago by 1.3k • written 3 months ago by ▴ 80
4
votes
4
replies
718
views
Forum: Cloud Computing Services available?
resources Services Computing Cloud Bioinformatics
updated 3 months ago by ★ 1.2k • written 4 months ago by ★ 2.2k
2
votes
7
replies
663
views
Forum: Build a Visual Analytic App for Rna-seq data [Ideas Accepted]
R plot rna-seq count
updated 4 months ago by 37k • written 4 months ago by ▴ 20
6
votes
3
replies
563
views
Forum: Best formats for storing large amounts of data for random access
file-formats databases
updated 4 months ago by 2.2k • written 4 months ago by 15k
0
votes
1
reply
226
views
Forum: Add an intercept column to a bed file
plink intercept bed
updated 4 months ago by 66k • written 4 months ago by • 0
4
votes
2
replies
920
views
Forum: Best resource for getting a person with a Math/Comp Sci background the right amount of Biology knowledge
teaching biology bioinformatics
4 months ago by Vincent Laufer ★ 2.5k
0
votes
0
replies
223
views
Forum: Normalization of ChIP-seq _ Spikein normalization + RPGC
ChIP-seq normalization RPGC Spikein Normalization
4 months ago by goddy93 • 0
3
votes
1
reply
290
views
Forum: Would an automated NGS analytics platform help research?
ngs data-analysis
updated 4 months ago by 37k • written 4 months ago by • 0
5
votes
2
replies
376
views
Forum: Skills for industry career in bioinformatics
industry
updated 4 months ago by 10k • written 4 months ago by ▴ 10
9
votes
6
replies
606
views
Forum: Programming languages in industry
programming language
updated 4 months ago by 9.4k • written 4 months ago by ▴ 30
2
votes
6
replies
597
views
Forum: Getting the best of RNA-Seq
RNA-Seq isoform gene expression
5 months ago by Antonio R. Franco ★ 5.0k
1
vote
0
replies
237
views
Forum: Not all Over Representation Analyses are the same!
clusterProfiler Analysis fisher hypergeometric ORA Pathway
5 months ago by Francesco ▴ 20
3
votes
2
replies
419
views
Forum: From protein-protein interaction networks to..
limitations tools knowledge computational workflow
5 months ago by BioInfoBeginner ▴ 40
0
votes
0
replies
286
views
Forum: Best practices for merging vcfs with different positions + different samples?
vcf genotypes bcftools bioinformatics
5 months ago by pabe ▴ 30
24
votes
6
replies
3.9k
views
6 follow
Forum: Awk in Bioinformatics
awk Forum shell perl
written 4.3 years ago by ★ 9.2k
7
votes
8
replies
870
views
Forum: Can we lock posts related to merging vcf files?
forum
updated 5 months ago by 95k • written 5 months ago by 2.5k
0
votes
0
replies
274
views
Forum: Bioinformatics for understanding cancer and other diseases
omics bioinformatics
5 months ago by pixie@bioinfo ★ 1.4k
1
vote
3
replies
674
views
Forum: What counts as a valid biological replicate in single cell RNAseq?
statistics biological replicates scRNA-seq
updated 5 months ago by 3.3k • written 5 months ago by • 0
3
votes
3
replies
442
views
Forum: Looking for a PostDoc position in ML-heavy medical bioinformatics in Germany
Germany PostDoc
updated 5 months ago by 26k • written 5 months ago by ★ 2.8k
0
votes
2
replies
491
views
Forum: Bioinformatics algorithm tutorials in C++/C
protein gene genome
updated 6 months ago by 52k • written 6 months ago by ▴ 970
34
votes
11
replies
7.5k
views
13 follow
Forum: Gallery: Computational tools for DNA methylation
computational-tools methylation
updated 3 months ago by 37k • written 7.1 years ago by ★ 9.2k
6
votes
8
replies
935
views
Forum: PC build for Nanopore data analysis
python PC pipeline nanopore-sequencing
6 months ago by stan.aanhane ▴ 30
7
votes
6
replies
682
views
Forum: How to learn bioinformatics?
bioinformatics
6 months ago by sakichwan ▴ 10
2
votes
2
replies
490
views
Forum: Project ideas
project-ideas
updated 6 months ago by 52k • written 6 months ago by • 0
0
votes
0
replies
223
views
Forum: Beagle5 imputation accuracy
beagle5 DR2 imputation impute2 impute-info
6 months ago by ch333 • 0
1
vote
6
replies
518
views
Forum: Bioinformatics Software Developer job interview steps and what to expect?
interview software-development
updated 5 months ago by 37k • written 6 months ago by • 0
2
votes
2
replies
398
views
Forum: What sequencing method is the most efficient for identifying genes driving rare diseases?
gene bioinformatics GWAS NGS discovery WGS
updated 7 months ago by 66k • written 7 months ago by • 0
5
votes
5
replies
546
views
Forum: Best book introducing R programming?
coding R
7 months ago by Scottie ▴ 10
4
votes
6
replies
535
views
Forum: How relevant are read numbers in FastQ headers for paired reads?
header fastq number read
7 months ago by Matthias Zepper 2.2k
0
votes
0
replies
330
views
Forum: commonly-used bioinformatics pipeline
Galaxy Bioinformatics
updated 7 months ago by 14k • written 7 months ago by ▴ 120
0
votes
0
replies
254
views
Forum: Master's topic in Bioinformatics
Bio-informatique
7 months ago by Badji Oumar • 0
13
votes
15
replies
2.5k
views
8 follow
Forum: Biostar under spam attack - restrictions added to post content and title
biostar Forum
updated 7 months ago by 122k • written 7.4 years ago by 95k
0
votes
1
reply
329
views
Forum: Retrieve SCCM data for client software distribution serviceNow
training servicenow online
7 months ago by hkrtrainings408 • 0
47
votes
24
replies
4.4k
views
15 follow
Forum: What's fascinating about Bioinformatics for potential students?
bioinformatics msc Forum
updated 7 months ago by ▴ 50 • written 5.1 years ago by 52k
5
votes
8
replies
964
views
Forum: SQL-why do we need it in Bioinformatics ?
Programming Bioinformatics
7 months ago by iibrams07 ▴ 10
6
votes
7
replies
559
views
Forum: Generic avatars, not gravatars?
technical avatar
7 months ago by Michael Dondrup 52k
1,000 results • Page 1 of 20
Recent Votes
Answer: Compare two RNA-Seq log2fc tables
Answer: Compare two RNA-Seq log2fc tables
Answer: Compare two RNA-Seq log2fc tables
Comment: Query regarding extraction of GTF file
Comment: Query regarding extraction of GTF file
What is the meaning of (-) log10(FDR) value, How to compare higher negative value to lower negative value?
Comment: Rename fasta headers
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Recent Replies
Comment: Doubt on annotation of ensembl ids in biomart using R by rpolicastro 10k
You should set your biomaRt version to the ensembl version used when generating the original ID list, or rerun your analysis with a newer a…
Comment: why do i get much more significant genes and wierd volcano plot with DESeq2 for by Shero • 0
I wasn't sure which one to use as usually I use LRT but i found they caused huge difference especially in padj value but im not sure which…
Comment: why do i get much more significant genes and wierd volcano plot with DESeq2 for by swbarnes2 12k
Can you explain exactly why you are doing LRT as opposed to Wald?
Answer: Compare two RNA-Seq log2fc tables by swbarnes2 12k
If you want to compare A/C to B/C, don't. Just compare A to B. If you want to compare A/B to C/D, do interactions. This will get you fol…
Comment: Compare two RNA-Seq log2fc tables by swbarnes2 12k
If you want to compare glycerol to sugarcane + glycerol, just compare them to each other.
Comment: Query regarding extraction of GTF file by Pierre Lindenbaum 150k
what did you try so far ?
Comment: Compare two RNA-Seq log2fc tables by joe ▴ 290
I would take only the difference. One could separately calculate a ratio, which might be more sensitive. However unless you (or OP) have a …
Answer: Trying to retrieve set of protein sequences based on gene IDs by josev.die ▴ 50
For `R` users : #Dependencies library(rentrez) Define some functions : get_protids_from_geneids <- function(gene_ids) { …
Comment: Compare two RNA-Seq log2fc tables by ctenosaga • 0
Not OP but I have run in to this issue too. What would be the appropriate way to calculate a 'fold-change difference' on these Log2fc value…
Comment: Index building failed by Gaye • 0
Thanks for your reply, I'm new to this stuff and thought I had to run the .sh file first to be able to use the indexes.
Answer: Index building failed by ATpoint 66k
If you download a premade index such as this one then it's ready to use. Running the indexing again defeats the purpose of downloading that…
Answer: Compare two RNA-Seq log2fc tables by joe ▴ 290
> I would like to compare two RNA-Seq tables of log2fc and obtain new > values of log2fc. Is it possible? You could calculate a 'fold-chan…
Answer: GWAS and vcf files. Lacking Phenotype by 4galaxy77 2.5k
It's easiest to start from the GWAS analysis and work backwards. Maybe your teacher has a different idea of how you should do this, but thi…
Comment: GWAS and vcf files. Lacking Phenotype by BQ • 0
Sorry for the confusion and wording, and thank you so much for the response! I see your point, so I will try to create vcf files for the tw…
Comment: What is a good algorithm for assembly long reads where the intended assembly len by mickalideh • 0
I am not familiar with this technique, but I do not see how it would lead to the desired result which is a contig that is more accurate tha…
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