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804
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Forum: Questions about going into Bioinformatics from an IT career
career
updated 14 months ago by 43k • written 2.6 years ago by ▴ 10
0
votes
0
replies
507
views
Forum: chimeric vs unaligned reads
alignment star reads chimeric
2.6 years ago by Galileo ▴ 10
0
votes
11
replies
2.2k
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
298
votes
27
replies
45k
views
33 follow
Forum: Up-to-date RNA-Seq Analysis Training/Courses/Papers (Dec 2017)
RNA-Seq sequencing papers
updated 21 months ago by 43k • written 8.3 years ago by ★ 2.4k
0
votes
4
replies
2.1k
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 2.6 years ago by 82k • written 2.6 years ago by ▴ 20
0
votes
0
replies
539
views
Forum: Extraction of s-farnesyl cysteine, s-palmitoyl cysteine, disulfide , metal binding
uniprot
updated 17 months ago by 43k • written 2.6 years ago by ▴ 10
37
votes
30
replies
5.1k
views
7 follow
Forum: Spam In Rss Feeds
meta RSS
updated 14 months ago by 43k • written 11.3 years ago by 5.3k
4
votes
8
replies
1.8k
views
Forum: Troubleshooting Tips - bcl2fastq creates duplicate reads
bcl2fastq duplicates readgroup demultiplex
2.6 years ago by DavidStreid ▴ 90
3
votes
1
reply
745
views
Forum: Which bioinformatics tool would you love to see running much faster?
Algorithm optimisation
updated 2.6 years ago by 35k • written 2.6 years ago by • 0
2
votes
2
replies
807
views
Forum: Biostars metadata
Biostars metadata
2.6 years ago by grant.hovhannisyan ★ 2.6k
12
votes
7
replies
7.1k
views
Forum: Differences between SMART-seq2, SMART-seq3, and 10x
cell smartseq UMIs single 10x
updated 5 weeks ago by ★ 6.0k • written 2.7 years ago by ▴ 70
0
votes
2
replies
731
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
531
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
6.5k
views
10 follow
Forum: Linearize fasta files
fasta code-golf
updated 2.7 years ago by ▴ 80 • written 5.2 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
942
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 2.7 years ago by ★ 2.4k • written 2.7 years ago by ★ 2.5k
17
votes
8
replies
2.7k
views
7 follow
Forum: Where should a biologist start when learning computational biology & systems biology
data-science systems-biology computational-biology
updated 13 months ago by 43k • written 2.7 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 43k • written 3.5 years ago by 13k
2
votes
1
reply
727
views
Forum: Advise for a computational neophyte
education research thesis master topic
updated 2.7 years ago by 4.1k • written 2.7 years ago by • 0
26
votes
6
replies
5.6k
views
9 follow
Forum: Making a living with bioinformatics
career
updated 22 months ago by 43k • written 5.9 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 2.7 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
520
views
Forum: Poll about a structured description of a tool, a pipeline
survey pipeline
updated 10 months ago by 43k • written 2.8 years ago by • 0
9
votes
9
replies
1.6k
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 13 months ago by 43k • written 2.8 years ago by ▴ 30
1
vote
0
replies
549
views
Forum: Potential applications of the AlfaFold ?
protein-folding
updated 2.8 years ago by 87k • written 2.8 years ago by ▴ 220
9
votes
3
replies
952
views
Forum: How to manage Biostar email subscriptions?
biostars
updated 2.8 years ago by 20 • written 2.8 years ago by ▴ 750
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 43k • 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 2.8 years ago by 27k • written 2.8 years ago by ▴ 30
2
votes
1
reply
585
views
Forum: Is there a way to look into funding proposals of published papers?
funding
updated 2.8 years ago by ★ 27k • written 2.8 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
865
views
Forum: Course on genome assembly and annotation
genomics
updated 2.9 years ago by 43k • written 2.9 years ago by ▴ 290
0
votes
1
reply
994
views
Forum: Opinions on SLAM-Seq for Differential Gene Analysis
DGE RNA-Seq htseq
updated 2.9 years ago by ★ 6.0k • written 2.9 years ago by ▴ 70
0
votes
1
reply
586
views
Forum: What can you detect with PE150bp shotgun sequencing with 100X depth
sequencing
updated 2.9 years ago by ★ 2.9k • written 2.9 years ago by ▴ 20
1
vote
4
replies
848
views
Forum: Is WGS reliable for larges indels and duplication?
sequencing
updated 2.9 years ago by ★ 3.4k • written 2.9 years ago by ▴ 20
0
votes
1
reply
1.4k
views
Forum: Basic beginner bioinformatics for biochemistry for university first year students
books course
updated 2.9 years ago by 11k • written 2.9 years ago by • 0
9
votes
7
replies
6.7k
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 2.7 years ago by 43k • written 2.9 years ago by • 0
0
votes
3
replies
716
views
Forum: what for masters?
microbio masters
updated 2.9 years ago by ★ 2.5k • written 2.9 years ago by • 0
0
votes
2
replies
859
views
Forum: Study Materials
learning study materials
2.9 years ago by AHa • 0
6
votes
3
replies
967
views
Forum: Asking for content suggestions for updated bioinformatics book
python
updated 2.9 years ago by 82k • written 2.9 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 2.9 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 2.7 years ago by 43k • written 2.9 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 43k • written 3.0 years ago by ▴ 10
10
votes
7
replies
2.0k
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
821
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: extract dendrogram cluster from pheatmap
extract dendrogram cluster from pheatmap
Answer: Searching for gene in multiple genomes
Comment: RNA velocity for smart-seq2 dataset
Answer: RNA velocity for smart-seq2 dataset
Answer: RNA velocity for smart-seq2 dataset
Comment: Help with choosing a model species for Augustus for a de novo assembled genome.
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Commentator to dsull ★ 6.0k
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Recent Replies
Answer: Issues with Mixture file when using CIBERSORTx by vjanve • 0
I ran into same issue of "duplicated gene symbol(s)": 1: In CIBERSORTxFractions(sigmatrix = sigmatrix, mixture = mixture, : 22292 dup…
Comment: creating batch colum for batch correction by Expert ▴ 10
Thank you for your response. These samples were collected from the same patient at different time points(day 0, 8 and 18) and these are ind…
Comment: creating batch colum for batch correction by ATpoint 82k
Not sure I follow. Can you first of all describe which comparisons you want to make, pretending there was no batch effect at all. Write dow…
Comment: Pindel Segmentation Fault Error by Ruqaiya • 0
This the tool still problematic?
Comment: Segmentation error while using a tool by Ruqaiya • 0
Thank you for the advice, i'll keep that in mind.
Comment: Segmentation error while using a tool by Ruqaiya • 0
I am trying to reproduce some bioinformatics data from a research paper-[this paper][1] as i was asked to work on an MRSA bioinfo project, …
Answer: Segmentation error while using a tool by Mensur Dlakic ★ 27k
Most likely you didn't do anything wrong. Going by your previous post that you have only 8 GB of RAM, the most likely reason is the lack of…
Comment: Segmentation error while using a tool by Thanujay S • 0
Hey @Ruqaiya! Can you please give more details on why smalt is opted here? According to what I can see, the tool has become obsolete! Why …
Comment: Extracting mutation status from MAF files - TCGA by Thanujay S • 0
Hey! Can you explain the question further? What have you tried?
Comment: Downloading older version of a tool by Ruqaiya • 0
I tried the 2nd option only. I got the files of older version from the author but that version isn't working on my WSL, it's showing Segmen…
Comment: filtering before dada2 by GenoMax 142k
> I encountered a significant decrease in the percentage of merged reads. You can check with `bbmerge.sh` from BBMap suite to see how many…
Comment: HCL database download by GenoMax 142k
Isn't the download link available above the plot: http://bis.zju.edu.cn/HCL/data/DGE/Adult-Transverse-Colon1_dge.txt.gz
Comment: fastq screen aligner no specified. by GenoMax 142k
You need to change this configuration file to point it to the location where the aligner executable can be found. So as an example followi…
Answer: Design matrix Differential expression analysis by Gordon Smyth ★ 7.1k
The expression levels do not change but the way that you have parametrized the expression levels does change. The two design matrices give…
Comment: The GDC Legacy Archive is retiring soon. by lcordeiro ▴ 40
Hi Zhenyu, do you happen to know how I can download metadata for some of the legacy files? I downloaded several IDATs from the legacy data …
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