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19
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14
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2.1k
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7 follow
Forum: What's the general view on point & click bioinformatics for routine analyses?
ngs RNA-Seq next-gen-sequencing
13 months ago by Simon ▴ 40
13
votes
14
replies
2.4k
views
Forum: NGS data analysis
NGS biostatistics
updated 13 months ago by 44k • written 8.2 years ago by ▴ 760
47
votes
14
replies
5.2k
views
Forum: Was FASTA ever popular?
FASTA alignment
updated 13 months ago by 44k • written 7.6 years ago by 13k
7
votes
14
replies
2.5k
views
7 follow
Forum: Why isn't GWAS used in oncology?
gwas association oncology studies somatic cancer
updated 21 months ago by 3.9k • written 21 months ago by ▴ 90
14
votes
14
replies
2.0k
views
6 follow
Forum: How do you process your reference data? (in genomic, metabolomic, transcriptomic, proteomic?)
OMICS Databanks
updated 13 months ago by 44k • written 7.5 years ago by ▴ 40
28
votes
14
replies
6.9k
views
9 follow
Forum: How Do You Use Cloud Computing For Bioinformatics In 2013?
cloud
updated 15 months ago by 44k • written 11.0 years ago by 11k
9
votes
14
replies
2.9k
views
Forum: Bookmark Questions Feature For Biostar
meta
updated 15 months ago by 44k • written 11.1 years ago by ★ 1.4k
12
votes
14
replies
2.5k
views
8 follow
Forum: Recovering bam files after unknown deletion in the storage
photorec bam sequencing
written 5.0 years ago by ▴ 70
5
votes
14
replies
2.1k
views
Forum: immediate help needed for genome sequence analysis of bacteria
genome miseq webinar paired-end
updated 12 months ago by 44k • written 7.1 years ago by • 0
17
votes
14
replies
3.6k
views
Forum: Biostar Release 1.2.17 (Updated Feb 18, 2013): Speed Optimizations
biostars
updated 15 months ago by 44k • written 11.3 years ago by 100k
8
votes
14
replies
2.8k
views
Forum: Portal of choice for literature commenting
literature
updated 2.4 years ago by 44k • written 9.7 years ago by ★ 1.9k
15
votes
14
replies
11k
views
6 follow
Forum: How Should I Go About Preparing For My Bioinformatics Phd Admissions Interview?
phd
updated 14 months ago by 44k • written 10.2 years ago by ▴ 150
9
votes
14
replies
2.4k
views
Forum: MS Bioinformatics Project
assembly sequencing alignment R SNP
updated 12 months ago by 44k • written 6.1 years ago by ▴ 10
28
votes
14
replies
8.4k
views
8 follow
Forum: Should I work first in a Bioinformatics company or get a Ph. D.?
Biochemistry PhD career
updated 13 months ago by 44k • written 8.1 years ago by ▴ 20
22
votes
14
replies
9.2k
views
6 follow
Forum: Too late to switch to Bioinformatics?
education career
updated 14 months ago by 44k • written 10.0 years ago by ▴ 30
17
votes
14
replies
3.4k
views
Forum: Asking for feedback on a Python library for computing alignments
alignment Python
updated 11 months ago by ▴ 220 • written 2.4 years ago by ▴ 60
17
votes
14
replies
2.0k
views
10 follow
Forum: What would be the trend in next few years in NGS era?
NGS sequencing
updated 12 months ago by 44k • written 5.5 years ago by ▴ 800
32
votes
14
replies
6.8k
views
9 follow
Forum: Pat Schloss of Mothur uses this
uses-this
updated 14 months ago by 44k • written 9.6 years ago by 100k
3
votes
14
replies
2.2k
views
6 follow
Forum: Search for gene variants
next-gen
updated 12 months ago by 44k • written 5.8 years ago by 8.3k
4
votes
14
replies
2.0k
views
Forum: Schema recommendation for a gene sequencing database
clinical-genetics database
13 months ago by Ram 44k
74
votes
14
replies
30k
views
12 follow
Forum: Bioinformatics Consulting Thoughts
consulting
updated 23 months ago by 44k • written 14.0 years ago by 4.5k
9
votes
14
replies
2.5k
views
Forum: [survey] Have your say on Bioinformatics and NGS training
next-gen training
updated 13 months ago by 44k • written 7.5 years ago by ▴ 60
60
votes
14
replies
12k
views
16 follow
Forum: Interesting bioinformatics blogs (2017 edition)
blogs
updated 15 months ago by 44k • written 7.2 years ago by 47k
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
20
votes
14
replies
2.2k
views
6 follow
Forum: Reuse of publicly available datasets
publication RNA-Seq sequencing
updated 13 months ago by 44k • written 7.3 years ago by ▴ 10
14
votes
14
replies
2.7k
views
7 follow
Forum: Bioinformatics startup market analysis
startup
written 3.1 years ago by ▴ 30
73
votes
14
replies
4.3k
views
12 follow
Forum: Things you wish you knew when entering the bioinformatics field
pitfalls advice
updated 11 months ago by 44k • written 3.7 years ago by ★ 17k
13
votes
13
replies
5.2k
views
6 follow
Forum: What Next After Snp Identification
disease genomics ngs
updated 14 months ago by 44k • written 10.4 years ago by ▴ 80
19
votes
13
replies
2.7k
views
8 follow
Forum: Can bioinformatics Phds be completely or almost completely done remotely?
PhD
updated 20 months ago by 6.6k • written 20 months ago by ▴ 40
30
votes
13
replies
3.8k
views
11 follow
Forum: what is your daily must see bioinformatics web site?
learn technology
updated 11 months ago by 44k • written 9.7 years ago by 9.7k
28
votes
13
replies
2.7k
views
Forum: Are there any workshops which are tailored to non-beginners/intermediate bioinformatics?
workshop
updated 19 months ago by 44k • written 8.8 years ago by ★ 4.0k
7
votes
13
replies
1.4k
views
Forum: How do you validate and verify your pipeline's software updates?
Validation Verification Quality-Assurance
updated 7 months ago by 44k • written 7 months ago by ▴ 10
23
votes
13
replies
2.9k
views
8 follow
Forum: Planning A Change To The Way User Reputation/Rankings Are Computed. Comments/Feedback Sought.
biostars
updated 15 months ago by 44k • written 10.8 years ago by 100k
28
votes
13
replies
1.5k
views
6 follow
Forum: Suppose you have a sequencer that can read the genome end-to-end. What aspects of bioinformatics will become irrelevant?
future
updated 17 months ago by 44k • written 7.6 years ago by ▴ 40
1
vote
13
replies
2.8k
views
Forum: Bioinformatics computer upgrade help
computer
updated 11 months ago by 44k • written 3.9 years ago by ▴ 50
21
votes
13
replies
5.3k
views
12 follow
Forum: User Friendly VCF Filtering Tools
vcf variant-calling
updated 13 months ago by 44k • written 8.0 years ago by 6.6k
7
votes
13
replies
797
views
7 follow
Forum: Ideal PC configurations and operating system for bioinformatics laboratory
PC
updated 14 hours ago by 19k • written 4 weeks ago by ▴ 10
18
votes
13
replies
7.1k
views
7 follow
Forum: Being co-first author for two nature series journals, what kinds of job can I find ?
phd
updated 19 months ago by 44k • written 7.5 years ago by ▴ 90
32
votes
13
replies
11k
views
10 follow
Forum: What Skills Do You Have To Have As A Phd Graduate In Bioinformatics?
genomics phd
updated 15 months ago by 44k • written 11.8 years ago by ▴ 650
2
votes
13
replies
2.7k
views
8 follow
Forum: Recommendation required for solution of computation requirements in Genomics field
DataAnalysis NGS Genomics
updated 3.1 years ago by 44k • written 3.1 years ago by ▴ 350
8
votes
13
replies
2.9k
views
8 follow
Forum: Commercial software for genomics / NGS / bioinformatics
NGS software genomics
updated 20 months ago by • 0 • written 20 months ago by ★ 1.4k
11
votes
13
replies
2.9k
views
Forum: what is the difference between bioinformatician and Postdoc in Bioinformatics
career
updated 13 months ago by 44k • written 7.3 years ago by 9.7k
3
votes
13
replies
2.5k
views
Forum: evaluate RNA extraction based on sequencing
sequencing RNA-Seq
updated 2.1 years ago by 44k • written 9.3 years ago by ▴ 50
19
votes
13
replies
3.9k
views
7 follow
Forum: Are Business Cards Redundant In The Science Industry
industry networking
updated 14 months ago by 44k • written 10.3 years ago by ▴ 30
31
votes
13
replies
16k
views
8 follow
Forum: Should I Pursue A Bioinformatics Msc?
career
updated 15 months ago by 44k • written 11.3 years ago by ▴ 70
24
votes
13
replies
5.7k
views
6 follow
Forum: The ethics of sci-hub
paywall open-science journals publications
updated 13 months ago by 44k • written 7.9 years ago by 47k
34
votes
13
replies
6.2k
views
11 follow
Forum: Best Way To Learn Bioinformatics For System Level Programmers.
NGS HPC
updated 14 months ago by 44k • written 10.3 years ago by ▴ 90
15
votes
13
replies
4.3k
views
8 follow
Forum: Does a PhD or work experience set you up better to do bioinformatics work in industry?
advice industry phd
updated 4 months ago by 3.9k • written 18 months ago by ▴ 30
4
votes
13
replies
1.7k
views
Forum: Looking for Participants: Meenta NovaSeq RunShare Beta
RunShare next-gen NovaSeq
updated 11 months ago by 44k • written 4.8 years ago by ▴ 10
29
votes
13
replies
3.7k
views
6 follow
Forum: Map of bioinformatics or who is bioinformatician.
self-study
updated 13 months ago by 44k • written 7.5 years ago by ▴ 260
1,000 results • Page 5 of 20
Recent Votes
A: Venter Genome Vcf
Answer: seqtk subseq in.fastq list.txt > out.fastq not extracting full sequence from
Answer: PCA plot no distinct cluster. Only p < 0.05 indicates significant DEGs, while ad
Random Access remote BAM files
Answer: PCA plot no distinct cluster. Only p < 0.05 indicates significant DEGs, while ad
C: Converting narrowPeak to bed
Answer: PCA plot no distinct cluster. Only p < 0.05 indicates significant DEGs, while ad
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Recent Replies
Comment: CreateSeuratObject taking very long by eae6d2e7 • 0
Thank you for your reply! I followed your advice to convert to sparse matrix first but I got this error Error in Matrix::sparseMatrix(raw_…
Answer: Venter Genome Vcf by ericrkofman ▴ 20
I can't find an hg38 version, and the old VCF seems to be of a different header format so I am having difficulty converting it to hg38 from…
Comment: What is a good way to do gene differentials in single cell data where one group by ATpoint 82k
Preferred if you have true biological replicates. Can still be combined with my subsetting strategy, like use 100x different cells for the …
Answer: ComplexHeatmap - How to change fontsize of rowAnnotation by ATpoint 82k
```r set.seed(1) m = matrix(rnorm(100), nrow = 10) rownames(m) = 1:10 # normal ha = rowAnnotation(foo = anno_mark(at=1:nrow(m), labels=row…
Comment: ComplexHeatmap - How to change fontsize of rowAnnotation by Ram 44k
Please do not add answers unless you're actually answering the question. I've moved your post to a comment.
Comment: ComplexHeatmap - How to change fontsize of rowAnnotation by hannes.bongartz • 0
I still cannot find a way. It seems to be an easy to solve issue and I was trying any possible combination with the aforementioned gp=gpar(…
Comment: What is a good way to do gene differentials in single cell data where one group by fracarb8 ★ 1.6k
I would probably use a pseudobulk approach.
Comment: Error when looping over multiple columns in a data frame in R by Jeremy ▴ 910
`cutpoint_results[[col_name]]` adds each new cut point to the list entitled "cutpoint_results", while keeping the original column names fr…
Answer: PCA plot no distinct cluster. Only p < 0.05 indicates significant DEGs, while ad by swbarnes2 14k
Never use uncorrected p-values with RNASeq. Your PCA is suggesting that your sample groups are not very different, and the DEG tests con…
Comment: What is a good way to do gene differentials in single cell data where one group by ATpoint 82k
I would keep it transparent. Do DE by subsetting large to small group. Do that randomly many times, then either average stats or use some s…
Answer: Trying to understand warning from MACS2 about too few paired peaks and differing by jared.andrews07 ★ 17k
Without looking at the actual sequence for each genome, my guess is that the Echinobase reference just matches much more closely to the org…
Comment: What do the transcript variant # mean in RefSeq? by Ram 44k
> It does not seem to be the longest transcript. Is it the canonical transcript? Longest == canonical. If you're looking for the transcrip…
Comment: Mouse or Rat Gene Expression Data Similar to GTEx by Shicheng Guo ★ 9.4k
Hi ATpoint, Thank you for your responses. My apologies if my inquiries have seemed one-sided. I greatly value the collaborative spirit of t…
Comment: Mouse or Rat Gene Expression Data Similar to GTEx by ATpoint 82k
Team? A team helps each other out. You only take help by posting your regular lazy do-my-work questions and never give anything back. Save …
Comment: What do the transcript variant # mean in RefSeq? by GenoMax 142k
> What do these correspond to? It does not seem to be the longest transcript. Is it the canonical transcript? Those are just different tra…
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