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421 results • Page 1 of 9
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1.2k
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206
replies
60k
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108 follow
Forum: What Are The Most Common Stupid Mistakes In Bioinformatics?
software
updated 11 months ago by ★ 1.4k • written 13.1 years ago by 22k
134
votes
65
replies
6.2k
views
11 follow
Forum: Bioinformatics vs. the Climate Crisis
RNA-Seq Climate
updated 11 months ago by 43k • written 4.4 years ago by ▴ 880
365
votes
58
replies
70k
views
44 follow
Forum: Recommend Your Favorite Bioinformatics Books
education books
updated 6 months ago by 43k • written 14.2 years ago by 100k
113
votes
53
replies
7.2k
views
16 follow
Forum: Middle author, but not first author projects. How would you approach this?
authorship career-development
updated 11 months ago by 43k • written 5.1 years ago by ▴ 170
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
103
votes
42
replies
31k
views
34 follow
Forum: List of cloud genomics companies
cloud-genomics
updated 5 weeks ago by 22k • written 10.5 years ago by ★ 3.6k
31
votes
41
replies
2.7k
views
12 follow
Forum: Question regarding journal publications
publications journals
updated 11 months ago by 43k • written 4.2 years ago by ▴ 40
36
votes
39
replies
4.2k
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 12 months ago by 43k • written 6.5 years ago by ▴ 130
129
votes
38
replies
8.3k
views
21 follow
Forum: Who are the Greatest Bioinformaticians Of All Time (GBOAT)
bioinformatics
updated 11 months ago by 43k • written 5.1 years ago by 100k
43
votes
37
replies
2.6k
views
7 follow
Forum: Checking the quality and reliability in bioinformatics
reproducibility
updated 12 months ago by 43k • written 6.6 years ago by ★ 4.3k
79
votes
35
replies
9.8k
views
17 follow
Forum: Do bioinformaticians often break molecular biologists' hearts by being the first author?
authorship career
updated 11 months ago by • 0 • written 8.5 years ago by ▴ 650
36
votes
34
replies
2.9k
views
9 follow
Forum: New to bioinformatics.....
gene
updated 11 months ago by 43k • written 6.1 years ago by • 0
26
votes
27
replies
2.2k
views
10 follow
Forum: Determining computer time required
computer hpc time
updated 3 months ago by ★ 6.0k • written 4 months ago by ▴ 40
197
votes
27
replies
35k
views
20 follow
Forum: Bioinformatics Cartoon
bioinformatics
updated 10 months ago by 43k • written 12.4 years ago by ★ 2.3k
3
votes
27
replies
2.6k
views
7 follow
Forum: What server do you use?
HPC AWS
updated 11 months ago by 43k • written 5.8 years ago by ★ 1.9k
24
votes
26
replies
2.1k
views
6 follow
Forum: Organizing a Bioinformatics Conference ?
meeting conference
updated 12 months ago by 43k • written 6.5 years ago by 161k
60
votes
25
replies
5.7k
views
8 follow
Forum: Am I crazy, or are most published RNA-seq studies vastly underpowered?
sample-size statistical-power RNA-Seq
updated 11 months ago by 43k • written 3.7 years ago by ▴ 230
15
votes
24
replies
2.6k
views
7 follow
Forum: Airport.bio: First class ticket to any biological database in the world
RNA-Seq ChIP-Seq SNP
updated 11 months ago by 43k • written 6.1 years ago by ▴ 350
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 6.0 years ago by ▴ 160
64
votes
24
replies
3.1k
views
12 follow
Forum: How much I must feel useless?
machine-learning Programming statistics
updated 11 months ago by 43k • written 5.6 years ago by ▴ 80
40
votes
23
replies
4.2k
views
12 follow
Forum: Why learn programming in bioinformatics?
Programming
updated 11 months ago by 43k • written 5.7 years ago by ▴ 110
33
votes
23
replies
4.2k
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 11 months ago by 22k • written 11 months ago by 4.2k
34
votes
22
replies
3.0k
views
11 follow
Forum: Have we failed as bioinformatician in this time of COVID-19
Bioinformatician COVID-19
updated 11 months ago by 43k • written 4.0 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 12 months ago by 43k • written 6.4 years ago by ▴ 810
39
votes
21
replies
14k
views
10 follow
Forum: Orientation of PE reads a review of --fr --ff and --rf meanings
RNA-Seq
updated 11 months ago by 43k • written 5.6 years ago by 8.6k
7
votes
20
replies
2.1k
views
Forum: NGS RNA-Seq Analysis Pipeline Tophat vs STAR
STAR RNA-Seq TopHat
updated 12 months ago by 43k • written 3.3 years ago by ▴ 10
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
56
votes
19
replies
4.1k
views
9 follow
Forum: How to apply for a job
resume cover-letter application CV
updated 12 months ago by 43k • written 6.8 years ago by 23k
13
votes
18
replies
3.2k
views
6 follow
Forum: Bioinformatics independent study group
Proteomic RNA-Seq Genomic
updated 12 months ago by 43k • written 6.7 years ago by ★ 1.3k
23
votes
18
replies
1.5k
views
Forum: Versioning of Blast DB and Reproducible Research
database blast reproducible-research
updated 11 months ago by 43k • written 4.0 years ago by ▴ 60
29
votes
18
replies
2.7k
views
12 follow
Forum: what are the big questions in bioinformatics field nowadays
genome
updated 11 months ago by 43k • written 4.2 years ago by ▴ 20
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 6.0 years ago by ▴ 30
21
votes
18
replies
1.8k
views
Forum: Is it safe to keep our data in github
github
updated 11 months ago by 43k • written 4.0 years ago by ▴ 70
17
votes
17
replies
2.0k
views
6 follow
Forum: Journal for beginners
journal
updated 11 months ago by 43k • written 6.1 years ago by ▴ 20
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
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 4.0 years ago by • 0
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
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
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
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
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
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
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
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
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
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 5.8 years ago by ▴ 10
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
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
17
votes
14
replies
1.9k
views
10 follow
Forum: What would be the trend in next few years in NGS era?
NGS sequencing
updated 11 months ago by 43k • written 5.5 years ago by ▴ 800
19
votes
14
replies
2.2k
views
Forum: What is the amount of sequencing data produced annually?
data research sequencing
updated 7 months ago by 22k • written 7 months ago by ▴ 70
421 results • Page 1 of 9
Recent Votes
Answer: Is there any way to modify this pie chart ?
Comment: Getting the coding_sequence.fasta from the .gff file from the AUGUSTUS gene pred
A: How can I convert -log10 (p-value) to p-value?
Comment: What does the 'E%' represent in BUSCO results?
Answer: What does the 'E%' represent in BUSCO results?
Answer: Combine Two Affymetrix Datasets With Same Platform
Comment: Kraken2 database
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Recent Replies
Comment: Is it necessary to do genotype quality filteration after snp calling with GATK by IdaHao0921 • 0
The species I study is not a model species, VQSR can not be applied here. I already used gatk hard-filtering. I mean, after hard-filtering,…
Answer: Overlapping Ranges within Granges object by Alex Reynolds 35k
If you're not tied to Granges, you could use `bedmap --fraction-both 0.1` to require at least 10% overlap between reference and map regions…
Comment: Getting the coding_sequence.fasta from the .gff file from the AUGUSTUS gene pred by Vijith ▴ 30
By doing some online search, I tried installing one module `cpan Bio::DB::Fasta` and it is running like a never-ending installation process…
Comment: Getting the coding_sequence.fasta from the .gff file from the AUGUSTUS gene pred by Vijith ▴ 30
I have tried installing AGAT. But it failed the tests. …
Comment: BWA alignment by ATpoint 82k
That is not what the logs above tell, but good you solved it.
Answer: Inquiry about deseq2 transformation by ATpoint 82k
The transformations first correct for sequencing depth (and [composition][1]) and then apply the variance stabilization / regularization. N…
Answer: The total expressed genes in RNA-Seq data by ATpoint 82k
There is no robust definition of "expressed" genes, this has been asked many times before. edgeR doesn't care about "expressed", it cares (…
Answer: What is the bin size for Bamcompare? by ATpoint 82k
It is the number of adjacent bases that are aggregated (binned) into a single value. I find binning not optimal, and would always set this …
Comment: Is it necessary to do genotype quality filteration after snp calling with GATK by Pierre Lindenbaum 161k
see VQSR https://gatk.broadinstitute.org/hc/en-us/articles/360035531612-Variant-Quality-Score-Recalibration-VQSR and https://gatk.broadinst…
Comment: Snakemake wrapper issue by Matvii Mykhailichenko • 0
Hi, I kind of did and kind of didn't: I stopped trying to use snakemake( I remember that it's a lot of hustle to install pickard, maybe you…
Answer: Is there any way to modify this pie chart ? by marco.barr ▴ 110
Hi, you can add the labels outside chart using `geom_label_repel` from `ggrepel` package. Check out this guide [https://r-charts.com/part…
Answer: Snakemake wrapper issue by Wei-Chen Pan • 0
Hi, did you solve your problem ? I also encounter same issue but it's `wrapper:"v3.9.0/bio/picard/mergevcfs"`. In my log file, it said:…
Comment: What does the 'E%' represent in BUSCO results? by Philipp Bayer 8.5k
No worries! I found the commit with the maths too: https://gitlab.com/ezlab/busco/-/blame/master/src/busco/busco_tools/hmmer.py?page=2#L135…
Comment: What does the 'E%' represent in BUSCO results? by 林明德 • 0
Thank you for your answer! It really helped me resolve a doubt!
Answer: What does the 'E%' represent in BUSCO results? by Philipp Bayer 8.5k
Ah your edit solved this. 50 BUSCOs contain internal stop codons, indicating they might be erroneous gene models, or the genes themselves a…
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