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Forum: Questions about going into Bioinformatics from an IT career
career
updated 14 months ago by 44k • written 2.6 years ago by ▴ 10
0
votes
0
replies
510
views
Forum: chimeric vs unaligned reads
alignment star reads chimeric
2.6 years ago by Galileo ▴ 10
0
votes
11
replies
2.3k
views
Forum: Can exons from different reading frames coexist in a peptide sequence?
prediction splicing codons protein exons
updated 2.6 years ago by 14k • written 2.6 years ago by ▴ 100
300
votes
27
replies
45k
views
33 follow
Forum: Up-to-date RNA-Seq Analysis Training/Courses/Papers (Dec 2017)
RNA-Seq sequencing papers
updated 22 months ago by 44k • written 8.3 years ago by ★ 2.5k
0
votes
4
replies
2.2k
views
Forum: Is there really a difference in blastn -task blastn and -task megablast when dealing with unmapped reads?
blastn
2.6 years ago by DNAngel ▴ 250
3
votes
4
replies
1.2k
views
Forum: For what command-line programs or workflows, do you need a graphical user interface for?
GUI
updated 2.6 years ago by ★ 3.2k • written 2.6 years ago by ▴ 320
7
votes
3
replies
1.9k
views
Forum: Misuse of RPKM or TPM normalization when comparing across samples and sequencing protocols
fpkm paper tpm
updated 2.7 years ago by 82k • written 2.7 years ago by ▴ 20
0
votes
0
replies
545
views
Forum: Extraction of s-farnesyl cysteine, s-palmitoyl cysteine, disulfide , metal binding
uniprot
updated 17 months ago by 44k • written 2.7 years ago by ▴ 10
37
votes
30
replies
5.1k
views
7 follow
Forum: Spam In Rss Feeds
meta RSS
updated 15 months ago by 44k • written 11.3 years ago by 5.3k
4
votes
8
replies
1.9k
views
Forum: Troubleshooting Tips - bcl2fastq creates duplicate reads
bcl2fastq duplicates readgroup demultiplex
2.7 years ago by DavidStreid ▴ 90
3
votes
1
reply
749
views
Forum: Which bioinformatics tool would you love to see running much faster?
Algorithm optimisation
updated 2.7 years ago by 35k • written 2.7 years ago by • 0
2
votes
2
replies
831
views
Forum: Biostars metadata
Biostars metadata
2.7 years ago by grant.hovhannisyan ★ 2.6k
12
votes
7
replies
7.3k
views
Forum: Differences between SMART-seq2, SMART-seq3, and 10x
cell smartseq UMIs single 10x
updated 8 weeks ago by ★ 6.1k • written 2.7 years ago by ▴ 70
0
votes
2
replies
738
views
Forum: How do I use a small font size in questions and answers?
fonts
updated 2.7 years ago by 100k • written 2.7 years ago by • 0
0
votes
0
replies
538
views
Forum: Loss of Gene Information: Discrepancies between RNA Sequencing, cDNA Microarray, and qRT-PCR
RNA-Seq microarray qRT-PCR
2.7 years ago by Antonio R. Franco ★ 5.1k
17
votes
10
replies
6.6k
views
10 follow
Forum: Linearize fasta files
fasta code-golf
updated 2.7 years ago by ▴ 80 • written 5.3 years ago by 16k
1
vote
1
reply
1.0k
views
Forum: What are some of the problems faced by bioinformaticians because the wet lab personell couldn't understand how data analysis was done?
Problems Bioinformaticians wetlab NGS
updated 2.7 years ago by ▴ 590 • written 2.7 years ago by ▴ 10
2
votes
2
replies
948
views
Forum: Internship in research
python genomics
2.7 years ago by vaishnavi ▴ 80
6
votes
2
replies
1.1k
views
Forum: Sequence (annotation) databases in 2021
uniprot annotation sequence ensembl ncbi
updated 2.8 years ago by ★ 2.4k • written 2.8 years ago by ★ 2.5k
17
votes
8
replies
2.8k
views
7 follow
Forum: Where should a biologist start when learning computational biology & systems biology
data-science systems-biology computational-biology
updated 14 months ago by 44k • written 2.8 years ago by ▴ 50
8
votes
11
replies
1.6k
views
6 follow
Forum: Paper: Ten simple rules for biologists initiating a collaboration with computer scientists
article opinion
updated 14 months ago by 44k • written 3.6 years ago by 13k
2
votes
1
reply
744
views
Forum: Advise for a computational neophyte
education research thesis master topic
updated 2.8 years ago by 4.1k • written 2.8 years ago by • 0
26
votes
6
replies
5.6k
views
9 follow
Forum: Making a living with bioinformatics
career
updated 23 months ago by 44k • written 6.0 years ago by ▴ 150
0
votes
3
replies
2.9k
views
Forum: How to calculate LDDT score for protein structure ?
LDDT PBD
updated 2.5 years ago by • 0 • written 2.8 years ago by • 0
13
votes
8
replies
1.9k
views
6 follow
Forum: Why do bioinformatics scientists collaborate and why that's good for science?
Bioinformatics
updated 2.8 years ago by 100k • written 2.8 years ago by ▴ 40
2
votes
3
replies
1.3k
views
Forum: Freelancers for bioinformatics web development
bioinformatics web-development freelance
updated 2.8 years ago by ★ 2.5k • written 2.8 years ago by ▴ 20
0
votes
0
replies
525
views
Forum: Poll about a structured description of a tool, a pipeline
survey pipeline
updated 11 months ago by 44k • written 2.8 years ago by • 0
9
votes
9
replies
1.7k
views
Forum: Opinions on publishing Research as a Blog?
bioinformatics publishing
2.8 years ago by ponganta ▴ 590
6
votes
4
replies
1.1k
views
Forum: What are the major advances in Bioinformatics since 2016
Bioinformatics
updated 14 months ago by 44k • written 2.8 years ago by ▴ 30
1
vote
0
replies
558
views
Forum: Potential applications of the AlfaFold ?
protein-folding
updated 2.8 years ago by 88k • written 2.8 years ago by ▴ 220
9
votes
3
replies
972
views
Forum: How to manage Biostar email subscriptions?
biostars
updated 2.8 years ago by 20 • written 2.8 years ago by ▴ 760
20
votes
12
replies
39k
views
7 follow
Forum: When To Use Sed Awk Over Perl Or Python
perl python awk
updated 14 months ago by 44k • written 10.4 years ago by 9.7k
9
votes
9
replies
3.7k
views
6 follow
Forum: Choose between AMD and INTEL Server CPU in 2021-2022
hardware server
updated 2.9 years ago by 27k • written 2.9 years ago by ▴ 30
2
votes
1
reply
590
views
Forum: Is there a way to look into funding proposals of published papers?
funding
updated 2.9 years ago by ★ 27k • written 2.9 years ago by ▴ 30
5
votes
6
replies
1.3k
views
Forum: Suggestion of Biostatistics book.
RNA-SEQ R Biostatics
updated 2.9 years ago by ★ 2.5k • written 2.9 years ago by ▴ 30
7
votes
2
replies
880
views
Forum: Course on genome assembly and annotation
genomics
updated 2.9 years ago by 44k • written 2.9 years ago by ▴ 310
0
votes
1
reply
1.0k
views
Forum: Opinions on SLAM-Seq for Differential Gene Analysis
DGE RNA-Seq htseq
updated 2.9 years ago by ★ 6.1k • written 3.0 years ago by ▴ 70
0
votes
1
reply
594
views
Forum: What can you detect with PE150bp shotgun sequencing with 100X depth
sequencing
updated 3.0 years ago by ★ 2.9k • written 3.0 years ago by ▴ 20
1
vote
4
replies
864
views
Forum: Is WGS reliable for larges indels and duplication?
sequencing
updated 3.0 years ago by ★ 3.4k • written 3.0 years ago by ▴ 20
0
votes
1
reply
1.5k
views
Forum: Basic beginner bioinformatics for biochemistry for university first year students
books course
updated 3.0 years ago by 11k • written 3.0 years ago by • 0
9
votes
7
replies
6.9k
views
6 follow
Forum: When applying to a PhD program in Harvard or MIT, how many publications are recommended?
GradSchool Grad Harvard School Application
updated 2.8 years ago by 44k • written 3.0 years ago by • 0
0
votes
3
replies
724
views
Forum: what for masters?
microbio masters
updated 3.0 years ago by ★ 2.5k • written 3.0 years ago by • 0
0
votes
2
replies
865
views
Forum: Study Materials
learning study materials
3.0 years ago by AHa • 0
6
votes
3
replies
976
views
Forum: Asking for content suggestions for updated bioinformatics book
python
updated 3.0 years ago by 82k • written 3.0 years ago by ▴ 690
9
votes
14
replies
2.5k
views
6 follow
Forum: What are the pain points in genomic variant interpretation/annotation processes?
analysis variant
updated 2.8 years ago by ★ 1.2k • written 3.0 years ago by ▴ 90
4
votes
3
replies
1.5k
views
Forum: Given my background, what are my chances of being accepted into a PhD program at Harvard/MIT?
mit PhD gradschool admission harvard
updated 2.8 years ago by 44k • written 3.0 years ago by • 0
0
votes
2
replies
1.9k
views
Forum: Bioinformatics internship in Europe
europe internship
updated 3.0 years ago by • 0 • written 3.0 years ago by ▴ 70
6
votes
4
replies
1.3k
views
Forum: Detailed Textbooks for bioinformatics and computational biology
biomedical Computational genomics
updated 2.9 years ago by 44k • written 3.0 years ago by ▴ 10
10
votes
7
replies
2.1k
views
Forum: Conceptual - Do I need to justify myself if I generate more than three replicates?
statistics conceptual
3.0 years ago by c_u ▴ 520
2
votes
2
replies
833
views
Forum: reporting differentially expressed genes in a global RNA-seq study
DESeq2 RNA-seq expression heatmaps transcriptomics
3.0 years ago by thomas.welch ▴ 50
1,000 results • Page 5 of 20
Recent Votes
A: Fold change - a final explanation
Comment: scRNA-seq quality control
Comment: How to get the ratio of allele counts from GATK derived VCF file?
Setting up Aspera Connect (ascp) on Linux and macOS
Setting up Aspera Connect (ascp) on Linux and macOS
Answer: Genes' fpkm values through cufflink
Answer: Genes' fpkm values through cufflink
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Recent Replies
Comment: Z score by Akash D ▴ 40
Alright! Got you...
Comment: Ideal PC configurations and operating system for bioinformatics laboratory by i.sudbery 19k
It very much depends on whether the OP does want/need to do the CellRanger runs locally or not. Doesn't really matter if its only occasion…
Comment: log2 fold change in RNA-seq analysis by Mensur Dlakic ★ 27k
Everything is already explained on this page, just read everything already written above. Specifically, [**this comment**][1]. [1]: htt…
Answer: log2 fold change in RNA-seq analysis by May Ling • 0
Good day everyone, Sorry I found a bit confusing and would appreciate if I could clarify on the calculation. I am using DESeq. My desire…
Answer: GWAS Phenotypes by 韩雨 • 0
In my opinion, the basis of the question is to solve whether the phenotype is regulated by genetics. In the aspect of genetic, the estima…
Answer: Classic threshold for log2 fold change in RNA-seq experiment by May Ling • 0
Good day everyone, Sorry I found a bit confusing and would appreciate if I could clarify on the calculation. I am using DESeq. My desire…
Comment: some error in building kraken2 database by ahmet • 0
Were you able to fix this issue? I'm also trying to add external species to krakendb
Comment: Z score by ATpoint 82k
logFCs are a bit difficult to cluster I think, because fold changes without stats attached to it are meaningless. They can be very big, due…
Comment: Z score by Akash D ▴ 40
Ok. However, if i perform it on log2FC, there wont be any control samples visible in my heatmap. Your answer is perfect.
Comment: Z score by ATpoint 82k
You can apply Z-scores on whatever you want, but it must make sense and depends on what you want to do. What is the context? See for exampl…
Answer: Z score in RNAseq by Akash D ▴ 40
Can Z score be applied on log2FC and then visualized? Alternatively, Can log2FC be converted to Z scores and then visualized as heatmap?
Comment: Ideal PC configurations and operating system for bioinformatics laboratory by ATpoint 82k
Just for comparison, I deal with scRNA-seq daily and my workstation is a 12700k i7 with 128GB RAM and even this is actually more than I nee…
Answer: Ideal PC configurations and operating system for bioinformatics laboratory by colindaven 6.4k
- As others have said, 1-2 workstations are probably the way to go. - A Linux OS like Ubuntu is probably easiest and has best docs - RA…
Comment: How to get the ratio of allele counts from GATK derived VCF file? by anikcropscience ▴ 230
Ok, thank you for the reply. I will check out the DP field then.
Comment: Alternatives To Liftover by Thanujay S • 0
Hey! Would you consider building an API for the same? Is that something you have planned?
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