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29
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17
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6 follow
Forum: Can Biostars use question template like Github issue/PR?
meta biostars template
updated 13 months ago by 43k • written 7.2 years ago by 8.5k
20
votes
17
replies
3.8k
views
Forum: Biostar Ads Are Here! Showcase Your Accomplishments To The World!
biostars
updated 15 months ago by 43k • written 10.9 years ago by 100k
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 11 months ago by 43k • written 3.7 years ago by ▴ 250
9
votes
17
replies
3.0k
views
Forum: “Systematic pattern of excess success"
paper statistics
updated 14 months ago by 43k • written 9.4 years ago by 3.5k
21
votes
17
replies
9.2k
views
7 follow
Forum: In YOUR personal opinion, who are the top 5 bioinformatics researchers in NGS in 21st century?
next-gen
updated 13 months ago by 43k • written 7.4 years ago by ▴ 10
13
votes
17
replies
4.2k
views
6 follow
Forum: Advice for undergraduate bioinformatics learners
advice
updated 21 months ago by 43k • written 8.4 years ago by ▴ 10
27
votes
17
replies
5.1k
views
Forum: Data sharing via Bittorrent is coming to Biostar
biostars bittorrent
updated 15 months ago by 43k • written 9.8 years ago by 100k
55
votes
16
replies
6.0k
views
8 follow
Forum: Mission Impossible: you have 1 minute to analyze the Ebola Genome
ebola mission-impossible
updated 20 months ago by 43k • written 9.5 years ago by 100k
21
votes
16
replies
3.2k
views
9 follow
Forum: Limit Upvotes Over A Certain Amount Of Hours
meta biostars
updated 15 months ago by 43k • written 11.3 years ago by ★ 3.6k
54
votes
16
replies
5.7k
views
13 follow
Forum: The new era of bioinformatics: simple and fast tools, fewer and more informative data
kallisto computational-cost
updated 15 months ago by 43k • written 9.0 years ago by 100k
31
votes
16
replies
2.2k
views
8 follow
Forum: What is in your opinion the current state-of-the-art sequencing platform for genomic assembly (Nov 2019)
next-gen-sequencing assembly genome
updated 11 months ago by 43k • written 4.5 years ago by ★ 5.1k
18
votes
16
replies
1.8k
views
Forum: Why are people not working on gene prioritization and candidate gene selection for new experiment design?
gene-prioritization
updated 11 months ago by 43k • written 5.6 years ago by ▴ 20
15
votes
16
replies
1.9k
views
Forum: Modernising the FASTQ Format
FASTA Efficiency FASTQ
updated 13 months ago by 43k • written 7.2 years ago by ▴ 520
51
votes
16
replies
5.9k
views
11 follow
Forum: What Are The Most Influential Bioinformatics/Computational Biology Papers Of 2011?
papers
updated 15 months ago by 43k • written 12.4 years ago by ★ 2.9k
24
votes
16
replies
2.3k
views
6 follow
Forum: #saveNCBI - it's a joke, right?
ncbi
updated 22 months ago by 43k • written 8.2 years ago by 11k
37
votes
16
replies
4.0k
views
9 follow
Forum: Sanger sequencing is no longer the gold standard?
Sanger NGS
updated 12 months ago by 43k • written 6.5 years ago by ▴ 220
30
votes
16
replies
2.3k
views
9 follow
Forum: Which programming langauge shall I start as a beginner in Bioinformatics
programming-language single-cell
updated 11 months ago by 43k • written 4.1 years ago by • 0
20
votes
16
replies
3.5k
views
Forum: Blacklist of questionable genbank entries
genbank gi stealth-virus blacklist
updated 14 months ago by 43k • written 10.1 years ago by 54k
43
votes
16
replies
4.6k
views
10 follow
Forum: Need Advice On How To Become A Senior Bioinformatician
advice career
updated 14 months ago by 43k • written 11.0 years ago by ▴ 30
6
votes
16
replies
7.1k
views
6 follow
Forum: Immune repertoire sequencing community
sequencing repseq immunology tcr ig
updated 2.2 years ago by 43k • written 9.8 years ago by 3.5k
29
votes
16
replies
3.2k
views
Forum: Making bioinformatics help and tutorials open
ensembl
updated 14 months ago by 43k • written 9.8 years ago by 23k
32
votes
16
replies
12k
views
9 follow
Forum: How to switch from bench research to computational biology?
career
updated 22 months ago by 43k • written 9.2 years ago by ▴ 70
14
votes
16
replies
5.0k
views
8 follow
Forum: Yet Another Programming Language
Rust Julia
updated 12 months ago by 43k • written 6.8 years ago by 9.7k
10
votes
16
replies
2.2k
views
Forum: Guide for posting better questions
meta
updated 13 months ago by 43k • written 7.7 years ago by 9.7k
22
votes
16
replies
7.2k
views
9 follow
Forum: Large Tables In Supplementary Pdf In Journal Articles
publication
updated 14 months ago by 43k • written 10.9 years ago by ▴ 520
61
votes
16
replies
8.1k
views
14 follow
Forum: Rust or C++, what to learn after Go for high-performance bioinformatics tools?
library
updated 16 months ago by ★ 1.3k • written 3.6 years ago by 8.5k
6
votes
15
replies
1.7k
views
Forum: PhD Bioinformatics on GWAS
SNP GWAS genome PHD
updated 11 months ago by 43k • written 4.3 years ago by ▴ 50
19
votes
15
replies
2.0k
views
6 follow
Forum: Cross out line in Biostars
meta
updated 11 months ago by 43k • written 6.0 years ago by 5.3k
28
votes
15
replies
2.3k
views
12 follow
Forum: Should bioinformaticians learn the scientific names of plants and animals?
sequence
updated 11 months ago by 43k • written 5.9 years ago by ▴ 10
16
votes
15
replies
6.3k
views
Forum: Would You Be Interested In Having A Usesthis Like Site For The Bioinformatics Community?
hardware software
updated 14 months ago by 43k • written 10.1 years ago by ▴ 920
28
votes
15
replies
4.5k
views
8 follow
Forum: Anyone Use R For Their Bioinformatics Work?
r
updated 14 months ago by 43k • written 10.6 years ago by ▴ 320
24
votes
15
replies
2.0k
views
Forum: Users of 0 rep required to read etiquette guides before first post?
meta
updated 13 months ago by 43k • written 8.2 years ago by 13k
7
votes
15
replies
2.9k
views
Forum: Masters in Bioinformatics
ChIP-Seq genome next-gen R RNA-Seq
updated 2.2 years ago by 43k • written 9.4 years ago by • 0
24
votes
15
replies
11k
views
11 follow
Forum: PhD in bioinformatics or biostatistics as a wet-lab scientist?
biology statistics PhD
updated 14 months ago by 43k • written 9.7 years ago by ▴ 70
10
votes
15
replies
2.2k
views
Forum: How should reference genome fasta files be distributed by UCSC?
reference-genome fasta freeze ucsc-genome-browser
updated 11 months ago by 22k • written 14 months ago by ★ 1.6k
23
votes
15
replies
5.1k
views
6 follow
Forum: On the usage of Golang
assembly next-gen alignment
updated 11 months ago by 43k • written 5.6 years ago by ▴ 80
23
votes
15
replies
3.7k
views
6 follow
Forum: Explaining purpose of using FastQC to a colleague
fastqc
updated 13 months ago by 43k • written 7.3 years ago by ▴ 810
21
votes
15
replies
2.1k
views
9 follow
Forum: Working abroad without a PhD
career
updated 11 months ago by 43k • written 4.6 years ago by ★ 1.4k
20
votes
15
replies
6.8k
views
Forum: How To Analyze Your Own Exome
exome filtering analysis vcf variant
updated 3.1 years ago by 43k • written 10.7 years ago by ▴ 130
42
votes
15
replies
7.8k
views
8 follow
Forum: Directions In Bioinformatics And Web-Based Data Visualization: Revisiting Javascript?
data-visualization python r
updated 14 months ago by 43k • written 11.5 years ago by 5.8k
13
votes
15
replies
2.2k
views
Forum: Posting questions on Biostars without Googling or a preliminary Literature search
meta biostars
updated 13 months ago by 43k • written 7.6 years ago by ★ 1.5k
8
votes
15
replies
2.4k
views
7 follow
Forum: How to identify your analytic data is true?
RNA-Seq ChIP-Seq next-gen-sequencing
updated 12 months ago by 43k • written 6.8 years ago by ▴ 80
23
votes
15
replies
2.5k
views
10 follow
Forum: I'm in a Masters of Bioinformatics Program and wanted to ask everyone for advice
career
updated 13 months ago by 43k • written 8.2 years ago by ▴ 20
57
votes
15
replies
4.8k
views
9 follow
Forum: Entice Biologists To Learn R
r
updated 15 months ago by 43k • written 12.6 years ago by 5.3k
12
votes
15
replies
2.3k
views
6 follow
Forum: Opinion: Bioinformatician - What comes first? Biology vs Informatics.
informatics biology knowledge
updated 13 months ago by 43k • written 7.3 years ago by ★ 2.7k
57
votes
15
replies
6.3k
views
9 follow
Forum: Good practices while dealing with very large datasets
Big-Data Programming
updated 12 months ago by 43k • written 7.0 years ago by ★ 1.2k
13
votes
15
replies
3.4k
views
8 follow
Forum: Biostar under spam attack - restrictions added to post content and title
meta biostars
updated 15 months ago by 43k • written 8.9 years ago by 100k
22
votes
15
replies
9.0k
views
11 follow
Forum: RNASeq user experience with Novogene?
RNA-Seq
updated 11 months ago by 43k • written 5.9 years ago by ▴ 80
8
votes
15
replies
4.1k
views
Forum: Can Galaxy Be Used Under The Hood? How About The Galaxy Appliance?
galaxy
updated 14 months ago by 43k • written 10.8 years ago by 11k
4
votes
14
replies
1.9k
views
Forum: Schema recommendation for a gene sequencing database
clinical-genetics database
13 months ago by Ram 43k
1,000 results • Page 4 of 20
Recent Votes
A: Best de novo assembler for insect genome ?
Comment: sci-RNA-seq
The Biostar Herald for Monday, May 13, 2024
Answer: Finding variants within a subset of a BAM file
Answer: Extracting only 4-fold degenerate sites from gene sequences/alignments?
Answer: Extracting only 4-fold degenerate sites from gene sequences/alignments?
Answer: Help with IGV abbreviation
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Recent Replies
Answer: RSeQC : infer_experiment.py Error: Could not retrieve index file by Trivas ★ 1.7k
You need to have indexed your bam/sam file using `samtools index`
Answer: Using ggplotly in R by jared.andrews07 ★ 16k
The simple answer is to plot it natively with plotly rather than use `ggplotly`. See [this stackoverflow answer](https://stackoverflow.com/…
Comment: Why does assigning genes with biomart give me different values than using a tran by GenoMax 142k
According to HUGO there is only one [**ZSCAN2 gene**][1] and it points to the first Ensembl gene ID (ENSG00000176371). Ensembl is annotatin…
Answer: RNAseq RNA content by noodle ▴ 580
There are many tools for this. I recommend [gatk (picard) CollectRnaSeqMetrics][1] or alternatively [RSeQC][2] and then run [multiqc][3…
Comment: Where to get the following bed file? by wyuan37 • 0
Hi, I emailed them and did get the bed file! Thank you so much.
Comment: Where to get the following bed file? by wyuan37 • 0
Thanks! Super helpful.
Answer: Post-imputation QC for input into GWAS analyses by LauferVA 4.2k
1. Imputation algorithms will output log files indicating, among other things, accuracy of imputation. We can't comment on specifics as we …
Comment: Using Cutadapt to trim adapters from paired-end small RNA sequence data by GenoMax 142k
You can simply ignore read 2. It is not adding any information since your small RNA's are going to be small and were completely sequenced b…
Comment: Overlapping Ranges within Granges object by ntsopoul ▴ 60
does this work with a single .bed file?
Comment: Finding variants within a subset of a BAM file by ramiro.barrantes • 0
Actually, I found a solution in downloading "bam slices" from TCGA ([https://docs.gdc.cancer.gov/API/Users_Guide/BAM_Slicing/][1]) , which …
Comment: Overlapping Ranges within Granges object by ntsopoul ▴ 60
![enter image description here][1]Here is some representative data and an image in igv of one gene. I have loaded the .bed file in igv. As …
Answer: RNAseq RNA content by ntsopoul ▴ 60
I guess he/she means raw RNA. Roughly 2% of all RNA is mRNA the rest is rRNA. I think the first thing you need to figure out is with which …
Comment: RNAseq RNA content by ATpoint 82k
What is "row RNA"?
Comment: Overlapping Ranges within Granges object by ATpoint 82k
I would probably collapse overlapping regions with `reduce` to create the second GRanges. Can you add some representative data? Using dput?
Comment: Overlapping Ranges within Granges object by ntsopoul ▴ 60
I have one Granges object and not two. Every IRanges entry is the critical region of the gRNA. Can this still work?
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