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421 results • Page 1 of 9
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6
votes
4
replies
407
views
Forum: Ideal PC configurations and operating system for bioinformatics laboratory
PC
10 days ago by Estevão ▴ 10
0
votes
0
replies
186
views
Forum: Improvement on automatic annotation of single-cell RNA-seq data from the literature using LLM
annotation scRNA llm
19 days ago by yxwucq • 0
5
votes
2
replies
347
views
Forum: Bioinformatics: Where do I start
Sequencing
updated 26 days ago by 43k • written 26 days ago by ▴ 20
7
votes
7
replies
1.7k
views
Forum: Bioinformatician who was retaliated against after reporting discriminatory harassment - Please help me navigate getting out of the situation I'm in
Career advice
updated 27 days ago by ★ 2.5k • written 27 days ago by • 0
1
vote
2
replies
387
views
Forum: VCF bulk handling
bcftools SnpEff WGS VEP VCF
25 days ago by Javier • 0
16
votes
10
replies
1.1k
views
6 follow
Forum: F*up Night style events for Bioinformatics ? Comment if you're interested!
mistakes
updated 6 weeks ago by 5.3k • written 6 weeks ago by ★ 2.4k
1
vote
1
reply
239
views
Forum: Can I use this community for software development?
software-development
updated 6 weeks ago by 43k • written 6 weeks ago by • 0
5
votes
2
replies
401
views
Forum: Can questions and answers on biostars be asked only in English? Can't I use Russian for example?
language
updated 6 weeks ago by 54k • written 6 weeks ago by • 0
0
votes
0
replies
188
views
Forum: Field of Study in Computational Biology
Genomics Computational-Biology PhD
updated 7 weeks ago by 43k • written 7 weeks ago by • 0
1
vote
3
replies
501
views
Forum: Development plan for a bioinformatics database developer/coder
developer
8 weeks ago by pixie@bioinfo ★ 1.5k
7
votes
8
replies
750
views
Forum: Bioinformatics career transition
career forum
updated 8 weeks ago by ★ 16k • written 8 weeks ago by ▴ 20
4
votes
2
replies
523
views
Forum: Exploring Amino Acid Patterns in Proteins Through N-gram Analysis
protein CAFA5
9 weeks ago by Anatoly A. ▴ 10
6
votes
6
replies
803
views
Forum: You have 3 days of zero obligations and expansive resources. What are you building?
hypothetical thought-experiment
9 weeks ago by jared.andrews07 ★ 16k
0
votes
0
replies
186
views
Forum: What other data types and pipelines you would like to see from the Genomics Data Commons (GDC)
gdc tcga genomics-data-commons
updated 9 weeks ago by 43k • written 9 weeks ago by ★ 1.2k
0
votes
2
replies
418
views
Forum: What's the state of the art in bacterial whole genome alignment?
whole genome alignment mauve
9 weeks ago by Dave Carlson ★ 1.7k
33
votes
12
replies
1.1k
views
7 follow
Forum: Nextflow and self-made pipelines opinion
nextflow pipeline data-analysis
10 weeks ago by karlaarz ▴ 110
5
votes
4
replies
593
views
Forum: Would reaching out to local labs and startups help with my career transition?
career volunteering
updated 11 weeks ago by 142k • written 11 weeks ago by ▴ 10
1
vote
2
replies
396
views
Forum: Exploring Career Reentry: Challenges and opportunities for Women After Maternity and Childcare Breaks
Maternity Career-Gap career-reentry
updated 11 weeks ago by 82k • written 11 weeks ago by ▴ 20
8
votes
7
replies
848
views
6 follow
Forum: Tower Server configuration for NGS data analysis
NGS
updated 11 weeks ago by ▴ 120 • written 3 months ago by • 0
1
vote
0
replies
298
views
Forum: list of bioinformatics tools in cancer genomics
mutations CNA cancer genomics LOH
updated 12 weeks ago by 161k • written 12 weeks ago by ★ 1.4k
4
votes
2
replies
399
views
Forum: bulk seq vs. sc-seq
scATAC-seq ATAC-seq scRNAseq RNAseq
updated 3 months ago by ★ 6.0k • written 3 months ago by ▴ 10
8
votes
6
replies
2.9k
views
Forum: Demonstrating Exponential Growth In Pre-School
education
written 10.2 years ago by 10k
0
votes
0
replies
214
views
Forum: tutorial for carrier screening analyses?
carrier-screening
updated 3 months ago by 43k • written 3 months ago by ▴ 20
2
votes
3
replies
453
views
Forum: My Project
Project CLI MD-Simulations Molecular-docking
3 months ago by Ajay A Shettigar • 0
17
votes
11
replies
1.0k
views
Forum: How to overcome the imposter syndrome in bioinformatics?
advice
3 months ago by sil_bioinfo ▴ 40
10
votes
7
replies
2.3k
views
Forum: How to learn bioinformatics?
learning
updated 3 months ago by ★ 1.3k • written 24 months ago by ▴ 20
26
votes
27
replies
2.1k
views
10 follow
Forum: Determining computer time required
computer hpc time
updated 3 months ago by ★ 6.0k • written 4 months ago by ▴ 40
7
votes
6
replies
764
views
Forum: where to work as a bioinformatician (NGS/IA)
employment omics ia ngs
updated 3 months ago by 43k • written 4 months ago by ▴ 20
21
votes
12
replies
3.6k
views
Forum: How to Use Biostars Part-3: Formatting Text and Using GitHub Gists
meta how-to documentation
3 months ago by Ram 43k
2
votes
1
reply
454
views
Forum: Cataloguing available spatial transcriptomics tools, then linking them together into a workflow?
cytassist transcriptomics nanostring xenium visium
4 months ago by LauferVA 4.2k
49
votes
20
replies
2.1k
views
10 follow
Forum: First experiences matter
first-time tolerance
updated 4 months ago by ★ 2.6k • written 4 months ago by ★ 27k
4
votes
3
replies
807
views
Forum: How to get started in bioinformatics
students
updated 4 months ago by 43k • written 4 months ago by ▴ 10
2
votes
2
replies
598
views
Forum: Do batches contain biological variations in omics data (RNAseq or scRNAseq)?
combat single-cell omics batch rnaseq
updated 4 months ago by 43k • written 4 months ago by ▴ 40
0
votes
2
replies
3.3k
views
Forum: I’m considering a career transition from software engineering to bioinformatics. Is it a good fit for me?
career
updated 4 months ago by 142k • written 4 months ago by ▴ 10
5
votes
3
replies
633
views
Forum: Binning the rare biosphere
metagenomics soil assembly techniques binning
updated 4 months ago by ★ 27k • written 4 months ago by ▴ 20
6
votes
2
replies
683
views
Forum: how to start Bioinformatics?
basics
updated 5 months ago by ★ 27k • written 5 months ago by • 0
19
votes
5
replies
1.2k
views
6 follow
Forum: What Are The Most Influential Bioinformatics/Computational Biology Papers Of 2023?
genomics snps survey papers
4 months ago by Raony Guimarães ★ 1.4k
4
votes
6
replies
960
views
6 follow
Forum: Bioinformatics: what do you think of it in the next 20 years?
future
updated 5 months ago by 43k • written 5 months ago by • 0
1
vote
1
reply
501
views
Forum: want to work in open source project/project in bioinformatics
project
updated 5 months ago by 43k • written 5 months ago by • 0
3
votes
5
replies
1.0k
views
Forum: Current Trends in Bioinformatics
structural-bioinformatics
updated 5 months ago by 43k • written 6 months ago by • 0
21
votes
11
replies
2.6k
views
6 follow
Forum: Rust bioinformatics projects ideas
projects scRNA-seq RNA-seq Rust
updated 5 months ago by 22k • written 14 months ago by ▴ 150
176
votes
46
replies
19k
views
26 follow
Forum: Crac: Funny And/Or Weird Names For Bioinformatics Tools
humor
5 months ago by Istvan Albert 100k
3
votes
2
replies
639
views
Forum: RNA-Seq data analysis - question
Python RNA-Seq R
updated 6 months ago by ▴ 10 • written 6 months ago by ▴ 40
0
votes
0
replies
385
views
Forum: How to learn bioinformatics online?
self-education education learning
updated 6 months ago by 43k • written 6 months ago by • 0
6
votes
5
replies
2.3k
views
Forum: Maintaning internal or private installation of Biostar or a similar Q&A site
Biostars
6 months ago by tshtatland ▴ 190
7
votes
9
replies
1.4k
views
6 follow
Forum: Mentor for a beginner bioinformatics student
project mentor
6 months ago by UT_FAN ▴ 40
0
votes
0
replies
475
views
Forum: Steps after doublet detection in single cell data
scRNA doublet
7 months ago by ishwarvh • 0
0
votes
0
replies
366
views
Forum: Automated Checks And QA
retrospective
7 months ago by Sasha ▴ 840
7
votes
13
replies
1.4k
views
Forum: How do you validate and verify your pipeline's software updates?
Validation Verification Quality-Assurance
updated 6 months ago by 43k • written 7 months ago by ▴ 10
21
votes
7
replies
12k
views
Forum: Bioinformatics short paper journal resource [software/webapps/database]
journal software webapp
updated 7 months ago by ▴ 100 • written 8.1 years ago by 11k
421 results • Page 1 of 9
Recent Votes
A: Get nonoverlapping regions of two bed files
Get nonoverlapping regions of two bed files
Answer: install package
Answer: How I do lift over a Plink bim file from Hg18 to Hg19.
Answer: joint callset and vcf sorting, unknown TAG issue
Answer: joint callset and vcf sorting, unknown TAG issue
A: what does 'none','unk','incmpl','cmpl' in UCSC refgene tables mean
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Scholar to colindaven 6.4k
Scholar to pjb39 ▴ 200
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Recent Replies
Comment: How to remove multiple batch effects from RNA-seq data before limma differential by ATpoint 82k
Include confounders into the limma design. No need for upfront removal. Note that libsize is taken care of by normalizing usually. Are you …
Comment: Longest transcript variant per gene by sansan_96 ▴ 90
Thank you very much, success in your projects.
Comment: In IGV is this a heterogeneous mutation or false call? by Tuck898 • 0
Thanks for the input :)
Comment: install package: package ‘gmwm’ is not available for this version of R by Pine ▴ 20
This seems to indicate that the R verison you are using (or packages it depends on) are not compatible with the R version you are using any…
Answer: Tissue-specific DEG analysis with DEseq2 by arctic ▴ 40
Not my area of expertise but GTEx portal seems to offer visual comparison of expression across tissues, maybe checking their pipeline could…
Comment: Is it Possible to "Merge" data from Replicates within a VCF SNP File by Pierre Lindenbaum 161k
> I think I am mostly struggling with what would need to be coded to my dataset here and how to run this loop on my set in general. i do…
Comment: Is it Possible to "Merge" data from Replicates within a VCF SNP File by ajbarrett98 • 0
Pierre, I am a novice at all of this in general and I have never used Java-based programming before. I may not be able to properly wrangl…
Answer: Practical Haplotype Graph v2 not finding correct paths by pjb39 ▴ 200
There have been a couple of bugs found that affect imputation accuracy, one in build-kmer-index and one in find-paths. The find-paths bug o…
Comment: Output file of satools flagstat empty by Mathew ▴ 100
Hi, In your samtools flagstat, -o specifies the output format. This can be set to 'default', 'json', or 'tsv'. If -o is not specified , t…
Comment: Tissue-specific DEG analysis with DEseq2 by BioinfGuru ★ 1.7k
I wrote an R package (see [rrdr.io][1], and [github][2]) some years ago to calculate tissue specificity from bulk RNAseq based on [this pap…
Comment: joint callset and vcf sorting, unknown TAG issue by Pierre Lindenbaum 161k
> set the Number= to 0 instead of 1; I'm not sure it's a problem. > probably I should also change the Type to Flag ah yes, my bad ! (f…
Comment: Output file of satools flagstat empty by GenoMax 142k
If you posted the entire command line then you did not include `-O $MAPPING/${i}.mapping_stats.txt` in that.
Comment: joint callset and vcf sorting, unknown TAG issue by Matteo Ungaro ▴ 100
@Pierre Lindenbaum I see. I looked up and, although present, the TAG goes like this in both files: `##INFO=<ID=1000gALT,Number=0,Type=Flag,…
Comment: joint callset and vcf sorting, unknown TAG issue by Matteo Ungaro ▴ 100
@Pierre Lindenbaum much appreciated, thanks for the explanation and possible approaches to solve this. I'm not in the position to run `U…
Comment: Tophat multiple or unique mapping criteria by Ruqaiya • 0
> The --b2-mp defines the mismatch penalty: the first number is used when the quality of the base is good, the second when it's bad. If you…
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