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459 results • Page 1 of 10
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1.2k
votes
206
replies
59k
views
108 follow
Forum: What Are The Most Common Stupid Mistakes In Bioinformatics?
software
updated 10 months ago by ★ 1.4k • written 13.0 years ago by 22k
364
votes
58
replies
69k
views
44 follow
Forum: Recommend Your Favorite Bioinformatics Books
education books
updated 6 months ago by 43k • written 14.1 years ago by 100k
197
votes
27
replies
34k
views
20 follow
Forum: Bioinformatics Cartoon
bioinformatics
updated 9 months ago by 43k • written 12.3 years ago by ★ 2.3k
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
134
votes
65
replies
6.0k
views
11 follow
Forum: Bioinformatics vs. the Climate Crisis
RNA-Seq Climate
updated 10 months ago by 43k • written 4.4 years ago by ▴ 880
129
votes
38
replies
8.1k
views
21 follow
Forum: Who are the Greatest Bioinformaticians Of All Time (GBOAT)
bioinformatics
updated 10 months ago by 43k • written 5.0 years ago by 100k
121
votes
35
replies
43k
views
20 follow
Forum: Snakemake vs. Nextflow: strengths and weaknesses
snakemake nextflow
updated 11 months ago by 43k • written 6.8 years ago by ▴ 810
121
votes
33
replies
39k
views
24 follow
Forum: Where To Look For Quality Bioinformatics Short Courses And Workshops?
Courses
updated 11 months ago by ★ 2.5k • written 10.7 years ago by 11k
113
votes
53
replies
7.0k
views
16 follow
Forum: Middle author, but not first author projects. How would you approach this?
authorship career-development
updated 10 months ago by 43k • written 5.0 years ago by ▴ 170
103
votes
42
replies
31k
views
34 follow
Forum: List of cloud genomics companies
cloud-genomics
updated 10 days ago by 22k • written 10.4 years ago by ★ 3.6k
79
votes
35
replies
9.6k
views
17 follow
Forum: Do bioinformaticians often break molecular biologists' hearts by being the first author?
authorship career
updated 10 months ago by • 0 • written 8.4 years ago by ▴ 650
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
69
votes
39
replies
4.6k
views
14 follow
Forum: Preparation for Bioinformatics.SE closing
meta biostars
updated 11 months ago by 43k • written 6.9 years ago by 13k
68
votes
48
replies
8.7k
views
16 follow
Forum: Stranger Things: unexpected limitations of popular tools
samtools hisat2
updated 11 months ago by 43k • written 6.8 years ago by 100k
64
votes
24
replies
3.0k
views
12 follow
Forum: How much I must feel useless?
machine-learning Programming statistics
updated 10 months ago by 43k • written 5.5 years ago by ▴ 80
59
votes
25
replies
5.4k
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 ▴ 220
57
votes
15
replies
6.2k
views
9 follow
Forum: Good practices while dealing with very large datasets
Big-Data Programming
updated 11 months ago by 43k • written 7.0 years ago by ★ 1.2k
56
votes
19
replies
4.1k
views
9 follow
Forum: How to apply for a job
resume cover-letter application CV
updated 11 months ago by 43k • written 6.7 years ago by 23k
49
votes
20
replies
2.0k
views
10 follow
Forum: First experiences matter
first-time tolerance
updated 3 months ago by ★ 2.6k • written 3 months ago by ★ 27k
47
votes
30
replies
4.3k
views
10 follow
Forum: Bioinformatics software distribution
software
updated 11 months ago by 43k • written 7.1 years ago by ★ 2.8k
45
votes
19
replies
2.8k
views
9 follow
Forum: Where and how NGS techniques are heading for the next 5 years?
next-gen NGS
updated 11 months ago by 43k • written 6.9 years ago by 5.8k
43
votes
37
replies
2.5k
views
7 follow
Forum: Checking the quality and reliability in bioinformatics
reproducibility
updated 11 months ago by 43k • written 6.5 years ago by ★ 4.3k
41
votes
27
replies
5.9k
views
8 follow
Forum: Why bioinformaticians need to know programming languages?
Python R Programming
updated 11 months ago by 43k • written 6.9 years ago by ▴ 90
40
votes
23
replies
4.1k
views
12 follow
Forum: Why learn programming in bioinformatics?
Programming
updated 11 months ago by 43k • written 5.6 years ago by ▴ 110
39
votes
21
replies
13k
views
10 follow
Forum: Orientation of PE reads a review of --fr --ff and --rf meanings
RNA-Seq
updated 10 months ago by 43k • written 5.5 years ago by 8.5k
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
37
votes
16
replies
4.0k
views
9 follow
Forum: Sanger sequencing is no longer the gold standard?
Sanger NGS
updated 11 months ago by 43k • written 6.5 years ago by ▴ 220
36
votes
39
replies
4.1k
views
11 follow
Forum: Survey/Vote: If you could double the speed of any three commandline tools, which three would they be?
blast RNA-Seq alignment next-gen-sequencing
updated 11 months ago by 43k • written 6.4 years ago by ▴ 130
36
votes
34
replies
2.8k
views
9 follow
Forum: New to bioinformatics.....
gene
updated 11 months ago by 43k • written 6.1 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 3.9 years ago by ▴ 10
34
votes
5
replies
2.3k
views
Forum: what we should reply when we are asked do you have any question?
career interview
updated 11 months ago by 43k • written 6.9 years ago by ★ 4.3k
34
votes
8
replies
2.7k
views
9 follow
Forum: Bioinformatician, a jack of all trades, but in the eye of the CV-beholder a master of none? How can your CV reflect the diverse skills that you have …
cv industry career
updated 10 months ago by 43k • written 4.5 years ago by ▴ 300
33
votes
23
replies
4.1k
views
8 follow
Forum: Is there a file format better suited for the era of pangenomics than the .vcf? What are its attributes?
VCF file-format genomics
updated 10 months ago by 22k • written 10 months ago by 4.2k
31
votes
12
replies
913
views
7 follow
Forum: Nextflow and self-made pipelines opinion
nextflow pipeline data-analysis
7 weeks ago by karlaarz ▴ 90
31
votes
16
replies
2.1k
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 10 months ago by 43k • written 4.5 years ago by ★ 5.1k
31
votes
41
replies
2.7k
views
12 follow
Forum: Question regarding journal publications
publications journals
updated 10 months ago by 43k • written 4.1 years ago by ▴ 40
30
votes
19
replies
10.0k
views
6 follow
Forum: Programming language use distribution from recent programs / articles
programming-language programs
updated 11 months ago by 43k • written 7.0 years ago by 11k
30
votes
13
replies
3.7k
views
11 follow
Forum: what is your daily must see bioinformatics web site?
learn technology
updated 10 months ago by 43k • written 9.6 years ago by 9.7k
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
29
votes
18
replies
3.3k
views
7 follow
Forum: Should I quit PhD program?
education career research phd
updated 11 months ago by 43k • written 5.9 years ago by ▴ 30
29
votes
18
replies
2.7k
views
12 follow
Forum: what are the big questions in bioinformatics field nowadays
genome
updated 10 months ago by 43k • written 4.2 years ago by ▴ 20
29
votes
10
replies
3.1k
views
Forum: How do you perform functional testing for your Bioinformatics tools?
development testing bug reliability
updated 11 months ago by 43k • written 7.1 years ago by 8.4k
28
votes
15
replies
2.2k
views
12 follow
Forum: Should bioinformaticians learn the scientific names of plants and animals?
sequence
updated 11 months ago by 43k • written 5.8 years ago by ▴ 10
27
votes
22
replies
5.7k
views
8 follow
Forum: Recommendations of Linux distros for beginners in bioinformatics
training linux
updated 11 months ago by 43k • written 6.4 years ago by ▴ 810
26
votes
10
replies
4.4k
views
6 follow
Forum: Why not merging?
fastq sequencing
updated 11 months ago by 43k • written 6.8 years ago by 16k
26
votes
12
replies
7.5k
views
6 follow
Forum: Mapping God Found ‘Scientifically Dishonest’ By Anonymous Peer Reviewers
ngs
updated 11 months ago by ▴ 10 • written 10.5 years ago by ▴ 50
26
votes
27
replies
2.0k
views
10 follow
Forum: Determining computer time required
computer hpc time
updated 3 months ago by ★ 5.8k • written 3 months ago by ▴ 40
26
votes
8
replies
1.6k
views
7 follow
Forum: Reasons to refuse to give support
design rna-seq statistics
updated 10 months ago by 43k • written 5.4 years ago by 8.3k
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 8.6k
25
votes
7
replies
3.7k
views
6 follow
Forum: Site Use Guidelines
meta biostars Guidelines
updated 6 months ago by 43k • written 14.6 years ago by 100k
459 results • Page 1 of 10
Recent Votes
Illumina reads preprocessing best practice for snp calling applications
Comment: Illumina reads preprocessing best practice for snp calling applications
Installing/switching between versions of R/Rstudio/Bioconductor
How To Generate Phylogeny Tree, Based On Snps?
How To Construct Phylogenetic Tree Using Snps
Basic normalization, batch correction and visualization of RNA-seq data
A: Read counts of STAR with gff file
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Recent Replies
Comment: Illumina reads preprocessing best practice for snp calling applications by Enrique • 0
Hi! I'm still interested in the step that you use for the SNP calling. Did you use `trimmomatic` or another tool for trimming before mappin…
Comment: Could you please assist in identifying this cluster? by ATpoint 81k
The information do not suffice. Please show plots and identified marker genes. Also, make sure it is not a trash cluster with low number of…
Comment: Free/open source 23andme-like analysis by joe ▴ 510
Thank you, I added 'accurate' now ;) I'm surprised to find out that there isn't some tool like multiqc that just summarizes all this infor…
Comment: Memory usage of picard Samsort by ATpoint 81k
Guys, just use `samtools sort` which won't get you into trouble with any of that.
Comment: Ciriquant not configuring hisat2 indexed files by Carlo Yague 8.6k
I don't know for sure, but I think that decreasing the amount of threads (1 or 2 instead of 4) will decrease the memory requirements of the…
Answer: Memory usage of picard Samsort by tamas.malkocs • 0
For me, setting `TMP_DIR` (`--TMP_DIR /home/tmp`) didn't work in picard 2.21.1. What solved the issue was setting the environmental variabl…
Answer: Plink merge errors. by Dinmukhamed • 0
I found answer https://www.biostars.org/p/101191/.
Comment: Ciriquant not configuring hisat2 indexed files by Atul K. • 0
it worked. Thank you. Now my terminal is crashing, seems 16gb of RAM and 4 cores isn't enough. Can you suggest something?
Comment: Adding CB tag to bam file by Maria • 0
I checked Picard ```AddOrReplaceReadsGroups``` and ```AddOATag```. Is that what you're referring to?
Comment: Free/open source 23andme-like analysis by Michael 54k
Noted that 'accurate' wasn't among your criteria ;) Anyway, most variant callers are free open-source software. However, for ancestry ana…
Answer: Mapping cDNA sequence of a single gene to a genome not hosted at UCSC server (wi by Pierre Lindenbaum 161k
> server so I cannot use Blat for this purpose. blat is avilable as a standane tool: http://hgdownload.soe.ucsc.edu/admin/exe/linux.x86…
Answer: Mapping cDNA sequence of a single gene to a genome not hosted at UCSC server (wi by b.contreras.moreira ▴ 160
My favourite for this task would be [GMAP]( http://research-pub.gene.com/gmap ), which can produce GFF format with option `-f 2`. It is…
Answer: Prediction of Ribosomal RNA Genes Using RNAmmer Software by colindaven 6.3k
Another alternative is the truly free implementation barrnap https://github.com/tseemann/barrnap. This is also installable via conda so qui…
Comment: Filtration Of Reads With Length Lower Than 30 From Bam by Hagen ▴ 10
thanks! This saved me quite some time, I was about to write code to calculate the aligned length from the CIGAR. But this can be done with …
Comment: Per base sequence content failed miserably by Kai Xin • 0
will look into that. Thank you very much
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