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9
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6
replies
299
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Forum: Programming languages in industry
programming language
updated 1 day ago by 9.3k • written 1 day ago by ▴ 20
4
votes
3
replies
271
views
Forum: Cloud Computing Services available?
resources Services Computing Cloud Bioinformatics
3 days ago by carlopecoraro2 ★ 2.1k
2
votes
6
replies
278
views
Forum: Getting the best of RNA-Seq
RNA-Seq isoform gene expression
10 days ago by Antonio R. Franco ★ 4.8k
1
vote
0
replies
113
views
Forum: Not all Over Representation Analyses are the same!
clusterProfiler Analysis fisher hypergeometric ORA Pathway
15 days ago by Francesco ▴ 20
3
votes
2
replies
261
views
Forum: From protein-protein interaction networks to..
limitations tools knowledge computational workflow
19 days ago by BioInfoBeginner ▴ 40
0
votes
0
replies
148
views
Forum: Best practices for merging vcfs with different positions + different samples?
vcf genotypes bcftools bioinformatics
21 days ago by pabe ▴ 10
1.1k
votes
181
replies
43k
views
106 follow
Forum: What Are The Most Common Stupid Mistakes In Bioinformatics?
software Forum
updated 23 days ago by ★ 2.1k • written 11.3 years ago by 20k
24
votes
6
replies
3.6k
views
6 follow
Forum: Awk in Bioinformatics
awk Forum shell perl
written 3.9 years ago by ★ 9.1k
7
votes
8
replies
664
views
Forum: Can we lock posts related to merging vcf files?
forum
updated 4 weeks ago by 93k • written 5 weeks ago by ★ 2.0k
3
votes
3
replies
331
views
Forum: Microbiologist as a career
discussion question
updated 4 weeks ago by ★ 4.5k • written 5 weeks ago by 10
0
votes
0
replies
155
views
Forum: Bioinformatics for understanding cancer and other diseases
omics bioinformatics
5 weeks ago by pixie@bioinfo ★ 1.4k
1
vote
3
replies
300
views
Forum: What counts as a valid biological replicate in single cell RNAseq?
statistics biological replicates scRNA-seq
updated 5 weeks ago by ★ 2.9k • written 5 weeks ago by • 0
3
votes
3
replies
280
views
Forum: Looking for a PostDoc position in ML-heavy medical bioinformatics in Germany
Germany PostDoc
updated 5 weeks ago by 25k • written 5 weeks ago by ★ 2.8k
0
votes
2
replies
295
views
Forum: Bioinformatics algorithm tutorials in C++/C
protein gene genome
updated 5 weeks ago by 52k • written 5 weeks ago by ▴ 790
33
votes
11
replies
7.0k
views
13 follow
Forum: Gallery: Computational tools for DNA methylation
methylation computational tools Forum
updated 6 weeks ago by • 0 • written 6.7 years ago by ★ 9.1k
6
votes
8
replies
491
views
Forum: PC build for Nanopore data analysis
python PC pipeline nanopore-sequencing
6 weeks ago by stan.aanhane ▴ 30
7
votes
6
replies
438
views
Forum: How to learn bioinformatics?
bioinformatics
6 weeks ago by sakichwan ▴ 10
2
votes
2
replies
278
views
Forum: Project ideas
project-ideas
updated 7 weeks ago by 52k • written 7 weeks ago by • 0
0
votes
0
replies
117
views
Forum: Beagle5 imputation accuracy
beagle5 DR2 imputation impute2 impute-info
8 weeks ago by ch333 • 0
1
vote
6
replies
346
views
Forum: Bioinformatics Software Developer job interview steps and what to expect?
interview software-development
updated 14 days ago by 36k • written 9 weeks ago by • 0
2
votes
2
replies
279
views
Forum: What sequencing method is the most efficient for identifying genes driving rare diseases?
gene bioinformatics GWAS NGS discovery WGS
updated 9 weeks ago by 62k • written 9 weeks ago by • 0
5
votes
5
replies
392
views
Forum: Best book introducing R programming?
coding R
9 weeks ago by Scottie ▴ 10
4
votes
6
replies
367
views
Forum: How relevant are read numbers in FastQ headers for paired reads?
header fastq number read
9 weeks ago by Matthias Zepper ▴ 970
0
votes
0
replies
230
views
Forum: commonly-used bioinformatics pipeline
Galaxy Bioinformatics
updated 10 weeks ago by 14k • written 10 weeks ago by ▴ 120
0
votes
0
replies
151
views
Forum: Master's topic in Bioinformatics
Bio-informatique
10 weeks ago by Badji Oumar • 0
13
votes
15
replies
2.3k
views
8 follow
Forum: Biostar under spam attack - restrictions added to post content and title
biostar Forum
updated 10 weeks ago by 117k • written 7.0 years ago by 93k
0
votes
1
reply
194
views
Forum: Retrieve SCCM data for client software distribution serviceNow
training servicenow online
10 weeks ago by hkrtrainings408 • 0
47
votes
24
replies
3.8k
views
15 follow
Forum: What's fascinating about Bioinformatics for potential students?
bioinformatics msc Forum
updated 11 weeks ago by ▴ 50 • written 4.7 years ago by 52k
5
votes
8
replies
570
views
Forum: SQL-why do we need it in Bioinformatics ?
Programming Bioinformatics
3 months ago by iibrams07 ▴ 10
6
votes
7
replies
412
views
Forum: Generic avatars, not gravatars?
technical avatar
3 months ago by Michael Dondrup 52k
2
votes
0
replies
305
views
Forum: Correct method of Merging/Integrating multiple single cell dataset using Seurat
seurat scrnaseq
3 months ago by rohitsatyam102 ▴ 530
0
votes
0
replies
153
views
Forum: Phylogenomics in the presence of gene flow
hybridisation introgression gene-flow Phylogenomics
3 months ago by jeronimocid93 • 0
2
votes
2
replies
347
views
Forum: Bioinformatician Jobs: Remote Flexible is possible?
remote-jobs bioinformatician
updated 14 days ago by 36k • written 3 months ago by ▴ 20
12
votes
9
replies
2.0k
views
8 follow
Forum: Methodological problems are extremely common for enrichment analysis - beware the pitfalls before you publish
DAVID enrichment ontology gene analysis GSEA
updated 3 months ago by 93k • written 3 months ago by ★ 1.4k
0
votes
0
replies
137
views
Forum: CIRCexplorer2 - Getting Count Matrix
CIRCexplorer2 counts circRNA
3 months ago by akamonto • 0
2
votes
5
replies
361
views
Forum: 1000 genomes data?
DNA 1000genomes variation
updated 3 months ago by 36k • written 3 months ago by ▴ 500
0
votes
0
replies
190
views
Forum: What kind of analysis automation or pipeline is most needed in genomic data analysis right now?
dna genome analysis programming statistics
updated 3 months ago by 62k • written 3 months ago by • 0
29
votes
10
replies
4.3k
views
10 follow
Forum: Interesting/useful/beautiful bio sequence viz tools
viz visualisation python Forum
updated 3 months ago by ★ 2.4k • written 4.3 years ago by 20k
3
votes
6
replies
1.6k
views
Forum: A Css For Small Screen Devices?
meta Forum
written 10.2 years ago by ★ 3.6k
10
votes
6
replies
779
views
Forum: M.S. Bioinformatics and Computational Biology: Will I be able to find a job after graduation? I'm worried...
career Masters Graduation
updated 14 days ago by 36k • written 4 months ago by ▴ 20
0
votes
3
replies
361
views
Forum: Project Topics on bioinformatic
biology Nutrition Data Technology analysis Molecular Coding
updated 4 months ago by 21k • written 4 months ago by • 0
0
votes
4
replies
434
views
Forum: Declining multithreading Diamond performance on decent dual AMD Epyc 7643 server
diamond performance EPYC 7643 multithreading AMD poor
updated 4 months ago by 117k • written 4 months ago by ▴ 10
2
votes
0
replies
217
views
Forum: How to download multiple .gz files from Ensembl Protists database
wget protist ensembl
4 months ago by rohitsatyam102 ▴ 530
3
votes
4
replies
811
views
Forum: Bioinformatics Research Topics/Areas that Everyone should take a look / Current Trends
postgraduates researcharea bioinformatics currenttrend
4 months ago by pfee418 ▴ 10
1
vote
0
replies
208
views
Forum: Continue exploring Bioinformatics and improving Bioinformatics Skills
currenttrend bioinformatics bioinformaticsskills postgraduate
4 months ago by pfee418 ▴ 10
0
votes
1
reply
362
views
Forum: ensemble VEP server is down
VEP ensemble
updated 4 months ago by 62k • written 4 months ago by • 0
15
votes
10
replies
755
views
7 follow
Forum: Tips and tricks to improve data visualization in bioinformatics
visualization ggplot2 plot
updated 4 months ago by ★ 20k • written 5 months ago by ★ 2.1k
3
votes
8
replies
670
views
Forum: What are the pain points of using Genomics on the cloud today?
datasharing pipelines workspaces cloud genomics
updated 5 months ago by 20k • written 5 months ago by ▴ 500
0
votes
0
replies
219
views
Forum: UniProt survey about programmatic access
documentation api survey uniprot
updated 5 months ago by 146k • written 5 months ago by ★ 2.0k
3
votes
9
replies
937
views
Forum: 100% variance explained on one PC in DESeq2 PCA?
RNA-Seq DESeq2
5 months ago by melatoninixo ▴ 10
1,000 results • Page 1 of 20
Recent Votes
C: Do you know some scripts to plot MAKER annotation results?
Answer: BWA MEM Multiple Primary Alignments
Answer: nextflow error
Answer: nextflow error
Comment: Comparison of two ChIP-seq experiments - impact of read length, PE or SE and cov
Answer: I have sequenced 4 MRSA genomes. If I want to perform pan genome analysis for th
nextflow error
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Recent Replies
Comment: Metabolomics log-transform or standardize for WGCNA by obidobi ▴ 30
Thaaaanks a bunch! Btw, since **log2** transformation could generate some negative values (some of my concentrations are quite low), I wa…
Comment: Script or tool to compare more than two .cls files in R or Python by Alex S • 0
They have the same cluster name but no correspondence for those names. **As such, you need to identify which lines are in common and then …
Comment: Is it possible to pass command line arguments to python script in snakemake? by Ecstasia • 0
I wouldn't agree that you never need to pass arguments to a python script in a snakemake workflow. What if the python script you're trying…
Comment: Logfold change by rpolicastro 8.9k
If any of the means are 0 you should add a pseudocount to all values too.
Comment: gsea msigdb RNA-seq input file by rpolicastro 8.9k
What guide are you referring to specifically? There are a few popular implementations of GSEA.
Answer: Logfold change by jared.andrews07 ★ 13k
`log2(mean(group1 samples)) - log2(mean(group2 samples))` Repeat as needed for whatever comparisons.
Comment: Metabolomics log-transform or standardize for WGCNA by Kevin Blighe 82k
Hi Nilay, we followed the 4-step filter procedure above (I just modified my post), and then always logged (natural log) followed by Z-trans…
Comment: Which strand specific option need to be used with HISAT2? by Antonio R. Franco ★ 4.8k
It is very convenient to use the pseudo mapper [salmon][1] with the `-l A` option. Salmon evaluates all forms of strandness at the same tim…
Comment: Metabolomics log-transform or standardize for WGCNA by obidobi ▴ 30
Hi Kevin, Thanks for an excellent summary! I have a Q related to this topic, do you think both normalizing and log transformation are re…
Comment: Parsing the codeml output in nice format? by sunnykevin97 ▴ 790
I tried this import pandas as pd lines = [] with open("/home/sun/Documents/genesite/Selection_Analysis/M0_res.txt", mode=…
Comment: Parsing the codeml output in nice format? by Joe 20k
What have you tried?
Comment: Problem while uploading DESeq2 library by cpad0112 21k
That is a problem. Every time you install a package, you will have to run Rstudio as admin. Try configuring user directory for library inst…
Comment: Get number of reads with a single, (almost) exact match to the full length of a by GenoMax 117k
> Almost feel like using blastn might be better at this point... Actually using a global alignment tool may be better. You could try `need…
Comment: I have sequenced 4 MRSA genomes. If I want to perform pan genome analysis for th by Joe 20k
Less bluntly: it depends on the question you're asking, but I can't really think of a question worth asking where only 4 genomes will satis…
Answer: I have sequenced 4 MRSA genomes. If I want to perform pan genome analysis for th by Joe 20k
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