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460 results • Page 3 of 10
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25
votes
7
replies
1.9k
views
6 follow
Forum: What Are The Best Bioinformatics Course Materials [2020]
course teaching
updated 11 months ago by 43k • written 3.3 years ago by 8.7k
0
votes
2
replies
782
views
Forum: A new data analytics platform for next gen sequencing
next-gen-sequencing RNA-Seq
updated 9 weeks ago by 43k • written 3.3 years ago by • 0
7
votes
1
reply
7.2k
views
Forum: What are chromatin states ?
genome ChIP-Seq
11 weeks ago by rohitsatyam102 ▴ 840
3
votes
7
replies
2.8k
views
Forum: Strategies for group submisions to SRA (BioProject)
NCBI SRA next-gen Archive Core-Facility
updated 11 months ago by 43k • written 5.5 years ago by ★ 2.7k
2
votes
6
replies
3.1k
views
Forum: RIP CentOS, CentOS 8 to be EOL'd in 2021
centos linux-distro os
updated 10 months ago by 43k • written 3.4 years ago by 11k
0
votes
0
replies
917
views
Forum: MAGs annotation tools
annotation genome
updated 10 months ago by 43k • written 4.2 years ago by ▴ 50
4
votes
5
replies
1.3k
views
Forum: Is Bioinformatics enough? Is it taken seriously?
career
updated 10 months ago by 43k • written 3.4 years ago by • 0
1
vote
2
replies
840
views
Forum: bioinformatics career choice - could use guidance
career
updated 10 months ago by 43k • written 3.5 years ago by • 0
19
votes
7
replies
1.2k
views
9 follow
Forum: DNA in pixels
genome alignment sequencing
updated 10 months ago by 43k • written 3.4 years ago by ▴ 30
0
votes
1
reply
578
views
Forum: What are the best online tutoring sites for biology help?
Biology
updated 10 months ago by 43k • written 3.5 years ago by • 0
4
votes
1
reply
722
views
Forum: Help with Bioinformatics Course
cancer
updated 10 months ago by 43k • written 3.6 years ago by • 0
0
votes
1
reply
682
views
Forum: MSPH (Medical Microbiology) student with interest in Bioinformatics
medical-microbiology microbiology
updated 11 months ago by 43k • written 3.5 years ago by • 0
0
votes
0
replies
704
views
Forum: Interview: Identifying the allelic expression of INDEL mutations
SNP RNA-Seq alignment
updated 10 months ago by 43k • written 3.6 years ago by • 0
73
votes
14
replies
4.2k
views
12 follow
Forum: Things you wish you knew when entering the bioinformatics field
pitfalls advice
updated 10 months ago by 43k • written 3.6 years ago by ★ 16k
0
votes
4
replies
979
views
Forum: Genes inhibiting each other's expression
Gene-expression
updated 10 months ago by 43k • written 3.6 years ago by ▴ 60
9
votes
6
replies
1.5k
views
Forum: How to start my career in Bioinformatics
career
updated 10 months ago by 43k • written 3.7 years ago by ▴ 10
1
vote
0
replies
708
views
Forum: Open Project in Bioinformatics
genome
updated 10 months ago by 43k • written 3.6 years ago by ▴ 10
16
votes
6
replies
8.0k
views
7 follow
Forum: What computer skills should I put on my resume?
resume genome
updated 11 months ago by 43k • written 6.4 years ago by ▴ 30
0
votes
2
replies
1.2k
views
Forum: Welcome to join our Wechat group for Bioinformatics!
single-cell ChIP-Seq genome algorithm RNA-Seq
updated 10 months ago by 43k • written 3.6 years ago by ▴ 160
12
votes
2
replies
2.9k
views
Forum: List of genome annotation tools (>140)
gene genome
updated 10 months ago by 43k • written 4.7 years ago by 8.5k
13
votes
7
replies
1.3k
views
Forum: Feedback for my python package to combine results from multiple classifiers
annotation protein python machine-learning
updated 10 months ago by 43k • written 3.7 years ago by ▴ 110
38
votes
17
replies
3.2k
views
7 follow
Forum: Why does bioinformatics use a special format like a BAM file instead of a database like SQLite?
sam bam samtools
updated 10 months ago by 43k • written 3.7 years ago by ▴ 250
60
votes
25
replies
5.5k
views
8 follow
Forum: Am I crazy, or are most published RNA-seq studies vastly underpowered?
sample-size statistical-power RNA-Seq
updated 10 months ago by 43k • written 3.7 years ago by ▴ 230
1
vote
1
reply
590
views
Forum: Bioinfo and Microbio
snp gene genome next-gen
updated 10 months ago by 43k • written 3.7 years ago by • 0
23
votes
11
replies
2.0k
views
9 follow
Forum: file and directory management best practices
file-management
updated 10 months ago by 43k • written 3.7 years ago by ▴ 140
1
vote
4
replies
1.8k
views
Forum: What do you want to learn about bioinformatics?
course education
updated 11 months ago by 43k • written 5.3 years ago by ▴ 120
2
votes
8
replies
1.6k
views
7 follow
Forum: Which tools do you miss?
software
updated 10 months ago by 43k • written 3.7 years ago by ▴ 110
3
votes
2
replies
1.2k
views
Forum: Preferred cloud environment for genomics.
next-gen-sequencing RNA-Seq alignment
updated 10 months ago by 43k • written 3.8 years ago by ▴ 10
1
vote
13
replies
2.8k
views
Forum: Bioinformatics computer upgrade help
computer
updated 10 months ago by 43k • written 3.8 years ago by ▴ 50
6
votes
5
replies
1.0k
views
Forum: Russian universities for the study of biomedicine
russian-university
updated 10 months ago by 43k • written 3.8 years ago by ▴ 30
22
votes
15
replies
8.8k
views
11 follow
Forum: RNASeq user experience with Novogene?
RNA-Seq
updated 11 months ago by 43k • written 5.8 years ago by ▴ 80
2
votes
9
replies
1.4k
views
Forum: 'No code' data manipulation tools for bioinformatics
software
updated 10 months ago by 43k • written 3.8 years ago by • 0
1
vote
2
replies
1.1k
views
Forum: Metagenomics Tutoring Opportunity
metagenomics microbial tutoring
updated 11 months ago by 43k • written 5.4 years ago by ▴ 30
23
votes
12
replies
1.9k
views
6 follow
Forum: Whole-Exome Analysis on a Mainstream Desktop PC
NGS whole-exome
updated 10 months ago by 43k • written 3.9 years ago by 11k
2
votes
9
replies
1.3k
views
Forum: Any good idea for bioinfo final presentation?
R
updated 10 months ago by 43k • written 3.9 years ago by • 0
5
votes
4
replies
1.2k
views
Forum: Consider CodeOcean or other solutions for runnable Biostars answers?
CodeOcean how-to meta
updated 10 months ago by 43k • written 3.9 years ago by 22k
0
votes
5
replies
1.1k
views
Forum: Advice for a start in Bioinformatics
R next-gen Python
updated 10 months ago by 43k • written 3.9 years ago by • 0
23
votes
18
replies
1.5k
views
Forum: Versioning of Blast DB and Reproducible Research
database blast reproducible-research
updated 10 months ago by 43k • written 3.9 years ago by ▴ 60
0
votes
0
replies
1.1k
views
Forum: ssDNA Aptamer structure prediction
aptamer selex
updated 10 months ago by 43k • written 3.9 years ago by • 0
0
votes
0
replies
782
views
Forum: Where can I find a one-year fellowship in bioinformatics?
Bioinformatics-Minor Postodoctoral-Fellowship
updated 10 months ago by 43k • written 3.9 years ago by • 0
22
votes
8
replies
1.9k
views
10 follow
Forum: Is there any online course for bioinformatics right now or in the next two or three months?
online-course mooc
updated 10 months ago by 43k • written 4.0 years ago by ▴ 50
21
votes
18
replies
1.7k
views
Forum: Is it safe to keep our data in github
github
updated 10 months ago by 43k • written 4.0 years ago by ▴ 70
3
votes
6
replies
2.1k
views
Forum: Choosing the appropriate test for differential analysis: Limma or Mann-Whitney (with BH correction)? Test for normality
R Shapiro-Wilk Limma Mann-Whitney
updated 10 months ago by 43k • written 4.0 years ago by ▴ 40
1
vote
7
replies
1.6k
views
Forum: Best online certificates / masters for Bioinformatics
learning certification courses online-training
updated 10 months ago by 43k • written 4.0 years ago by • 0
34
votes
22
replies
2.9k
views
11 follow
Forum: Have we failed as bioinformatician in this time of COVID-19
Bioinformatician COVID-19
updated 10 months ago by 43k • written 4.0 years ago by ▴ 10
0
votes
2
replies
1.4k
views
Forum: Alternative of Ingenuity Pathway Analysis - QIAGEN to filter Biomarkers
RNA-Seq
updated 10 months ago by 43k • written 4.0 years ago by • 0
7
votes
8
replies
2.4k
views
Forum: Virus Genome Length and GC Content of SARS-COV-2 causing COVID-19
sequence genome
updated 10 months ago by 43k • written 4.1 years ago by ▴ 30
1
vote
0
replies
585
views
Forum: New to bioinformatics
R Python
updated 10 months ago by 43k • written 4.0 years ago by ▴ 10
30
votes
16
replies
2.2k
views
9 follow
Forum: Which programming langauge shall I start as a beginner in Bioinformatics
programming-language single-cell
updated 10 months ago by 43k • written 4.0 years ago by • 0
0
votes
1
reply
2.2k
views
Forum: How's the bioinformatics engineering path? How to become a bioinformatics engineer?
machine-learning Bioinformatics-engineer
updated 10 months ago by 43k • written 4.0 years ago by ▴ 60
460 results • Page 3 of 10
Recent Votes
Comment: downloading genomes in fasta format from accession ids
Comment: PCA plot (Suggestions Needed)
Answer: PCA plot (Suggestions Needed)
PCA plot (Suggestions Needed)
Comment: To get p-values for the TPM
A: Where To Download Pam50 Gene Set?
A: Where To Download Pam50 Gene Set?
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Recent Replies
Comment: Adding CB tag to bam file by swbarnes2 14k
I think both these programs are just adding the same tag to every line. I don't think either cares whether it's called RG or CB
Comment: PCA plot (Suggestions Needed) by swbarnes2 14k
Even if this was real data, the tiny numbers for the PC1 and PC2 indicate that the differences between the samples are all absolutely tiny.…
Comment: Creating Synthetic Sequences for a ML Model by biochugs • 0
Thanks for the input. I'll continue to think of more ideas that may be achievable.
Comment: PCA plot (Suggestions Needed) by Jeremy ▴ 890
You could also try kernel PCA, which is a non-linear form of PCA, although this will be more time-consuming.
Comment: Troubleshooting RNA-seq data with DNA contamination by DKA ▴ 40
I have unstranded RNA-seq data. Please share the tool with me, if you do not mind.
Comment: PCA plot (Suggestions Needed) by Mensur Dlakic ★ 27k
Everything that @f1f58aed said, plus that there may be no data manipulation that will give you the clusters you expected. Sometimes there a…
Answer: Creating Synthetic Sequences for a ML Model by Mensur Dlakic ★ 27k
It is a good idea, though I don't see how it would work in practice. I think you will encounter at least additional problem on top of da…
Answer: PCA plot (Suggestions Needed) by Jeremy ▴ 890
Right now, the WT samples are clustering together, but you have one mutant sample off by itself, which could be an outlier. How did you sc…
Comment: Adding CB tag to bam file by GenoMax 141k
@yokofakun had written this: https://www.biostars.org/p/336965/ https://github.com/ruqianl/appendCB may also be useful.
Comment: Troubleshooting RNA-seq data with DNA contamination by GenoMax 141k
Please post information about your tool as a `tools` category post. Don't wait/ask other users to ask you.
Comment: Adding CB tag to bam file by Maria • 0
Sorry for the delay in my answer, I got sidetracked. I am using ```samtools addreplacerg -r "@RG\tID:$cell" -o $cell.bam -h $LINE``` bu…
Answer: Troubleshooting RNA-seq data with DNA contamination by haibol2017 ▴ 10
We just developed a R package to tackle this problem. Do you have stranded or unstranded RNA-seq data contaminated with gDNA? If you wou…
Comment: How to trim transcripts using information from NCBI contamination screen report by GenoMax 141k
`bbduk.sh` can use the transcripts as input. There is a `adapters.fa` included in the `resources` directory of the distribution. You can do…
Comment: PCA plot (Suggestions Needed) by swbarnes2 14k
Cross posted here (including the code used to make up the counts): https://support.bioconductor.org/p/9157911/#9157959
Comment: To get p-values for the TPM by swbarnes2 14k
RSEM returns a kind of p-value if you run it with the "prior-enhanced" option. Did you do that? Are you completely sure that's the value y…
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