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459 results • Page 1 of 10
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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
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
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
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
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
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
1
vote
2
replies
18k
views
Forum: Would you rather analyze a dataset with a strong, non-collinear batch effect, or a weak, collinear batch effect.
collinear latent batch-effect variable GLM
8 months ago by LauferVA 4.2k
9
votes
10
replies
17k
views
8 follow
Forum: Open Source Bioinformatics projects for beginners
Open-Source Beginners
updated 11 weeks ago by • 0 • written 6.2 years ago by ▴ 40
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
23
votes
6
replies
13k
views
Forum: List Of File Formats Used In Bioinformatics?
bioinformatics
updated 9 months ago by 43k • written 11.5 years ago by ▴ 140
6
votes
5
replies
12k
views
Forum: Single-end sequencing versus paired-end
Assembly snp sequencing
updated 10 months ago by 43k • written 4.2 years ago by ▴ 20
21
votes
7
replies
11k
views
Forum: Bioinformatics short paper journal resource [software/webapps/database]
journal software webapp
updated 6 months ago by ▴ 100 • written 8.0 years ago by 11k
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
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
13
votes
7
replies
9.3k
views
Forum: The struggle between fastq and fastq.gz, compressed v/s uncompressed file formats
fastq
updated 11 months ago by 43k • written 6.8 years ago by 5.8k
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
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
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
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
6
votes
5
replies
7.6k
views
Forum: Converting GFF to GTF
GTF GFF
updated 10 months ago by 43k • written 4.1 years ago by 8.5k
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
9
votes
1
reply
7.3k
views
Forum: Master in statistics or bioinformatics
masters career statistics
updated 10 months ago by 43k • written 10.0 years ago by ▴ 50
7
votes
1
reply
7.2k
views
Forum: What are chromatin states ?
genome ChIP-Seq
10 weeks ago by rohitsatyam102 ▴ 840
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
12
votes
7
replies
6.9k
views
Forum: Differences between SMART-seq2, SMART-seq3, and 10x
cell smartseq UMIs single 10x
updated 25 days ago by ★ 5.8k • written 2.6 years ago by ▴ 70
14
votes
5
replies
6.9k
views
Forum: Seurat vs Monocle
R RNA-Seq next-gen single-cell
updated 10 months ago by 43k • written 4.8 years ago by 3.2k
20
votes
24
replies
6.9k
views
6 follow
Forum: Python or R
RNA-Seq alignment next-gen-sequencing
updated 11 months ago by 43k • written 5.9 years ago by ▴ 160
14
votes
11
replies
6.7k
views
7 follow
Forum: Do you need a deduplication tool for FASTQ data in fastp?
deduplication fastp
updated 10 months ago by 43k • written 4.9 years ago by ★ 2.5k
11
votes
7
replies
6.5k
views
Forum: Using Graphics Processing Units (GPUs) in bioinformatics
algorithm GPU
updated 10 months ago by 43k • written 4.7 years ago by ▴ 290
11
votes
5
replies
6.4k
views
Forum: Slurm, Son of Grid Engine, Mesos, and Hadoop YARN vs HTCondor and Torque
PBS HPC SDSC Torque
updated 11 months ago by 43k • written 5.7 years ago by ★ 9.4k
8
votes
7
replies
6.4k
views
6 follow
Forum: Bioinformatic or bioinformatics?
spelling
updated 11 months ago by 43k • written 6.5 years ago by ▴ 290
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
3
votes
2
replies
6.2k
views
Forum: Best book for learning Next-Generation Sequencing Data Analysis?
ngs
updated 11 months ago by 43k • written 6.1 years ago by ★ 1.2k
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
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
10
votes
4
replies
5.8k
views
Forum: Bioinformatics: Which language should I learn
programming
updated 10 months ago by 43k • written 4.9 years ago by • 0
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
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
1
vote
8
replies
5.3k
views
Forum: Would you use sci-hub's mirror site?
sci-hub
updated 10 months ago by 43k • written 4.3 years ago by • 0
9
votes
8
replies
5.1k
views
Forum: R or python, which one do you prefer in analysing scRNAseq datasets?
R RNA-Seq python
updated 11 months ago by 43k • written 5.9 years ago by • 0
23
votes
15
replies
5.0k
views
6 follow
Forum: On the usage of Golang
assembly next-gen alignment
updated 10 months ago by 43k • written 5.5 years ago by ▴ 80
7
votes
7
replies
5.0k
views
Forum: Filtering out chromosomes from reference genome
RNA-Seq Alignment
updated 11 months ago by 43k • written 5.9 years ago by 5.3k
14
votes
9
replies
5.0k
views
8 follow
Forum: MD into bioinformatics
MD career
updated 10 months ago by 43k • written 5.3 years ago by ▴ 30
14
votes
16
replies
4.9k
views
8 follow
Forum: Yet Another Programming Language
Rust Julia
updated 11 months ago by 43k • written 6.8 years ago by 9.7k
11
votes
5
replies
4.8k
views
Forum: Bioinformatics Workstation Suggestions
RNA-Seq next-gen workstation
updated 10 months ago by 43k • written 4.8 years ago by ▴ 110
8
votes
6
replies
4.7k
views
6 follow
Forum: Are OTUs an accurate measure of abundance?
next-gen 16S-rRNA
updated 11 months ago by 43k • written 6.3 years ago by ▴ 30
13
votes
11
replies
4.7k
views
Forum: Anyone using Ubuntu on Windows (WSL)?
ubuntu wsl
updated 11 months ago by 43k • written 5.8 years ago by ▴ 250
15
votes
11
replies
4.7k
views
9 follow
Forum: Methodological problems are extremely common for enrichment analysis - beware the pitfalls before you publish
GSEA DAVID enrichment-analysis -geneontology
updated 11 months ago by 43k • written 2.1 years ago by ★ 1.9k
3
votes
7
replies
4.6k
views
Forum: Typical costs for RNA-Seq analysis
RNA-Seq
updated 11 months ago by 43k • written 7.0 years ago by ▴ 260
459 results • Page 1 of 10
Recent Votes
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
Comment: Free/open source 23andme-like analysis
A: How to obtain all accession.version identifiers for a BLAST database using ENTRE
Comment: Editing Human Reference Genome by adding a CDS
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Recent Replies
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
Comment: Korean human genome reference file by SeoGyun • 0
Thanks..... But I want to do imputation, so I have to make it as a vcf file, but the site only has a fatsa file....
Comment: miRNAs quantification using mirdeep2 tool by Ashok • 0
thank you for your reply https://github.com/rajewsky-lab/mirdeep2/blob/master/TUTORIAL.md i saw this github tutorial for miRNA quantifica…
Comment: Load a full GFF3 into annotation track using arrow (Apollo) by cmdcolin ★ 3.8k
Hi there, I let a developer know of this thread and they said they can check it out next week. Feel free to post to the https://github.com/…
Comment: How to get the reference panel for UKBB by 航太郎 • 0
Thanks for your guide!
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