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Forum: I'm currently in my second year of my phd, I'm intrested to develop somthing for galaxy server
workflow galaxy
updated 11 months ago by 43k • written 5.6 years ago by • 0
7
votes
4
replies
2.2k
views
Forum: How hard it is to get a bioinformatics degree in one country but find a career in another country?
career Masters
updated 11 months ago by 43k • written 5.9 years ago by ▴ 10
7
votes
6
replies
1.8k
views
Forum: Bioinformaticians - Am I on the Right Track?
Career
updated 11 months ago by 43k • written 4.4 years ago by ▴ 80
7
votes
3
replies
1.3k
views
Forum: Is it still recommended to avoid macOS Big Sur?
mac
updated 12 months ago by 43k • written 3.4 years ago by ▴ 210
7
votes
6
replies
3.1k
views
Forum: transition to bioinformatics
career wet-lab
updated 11 months ago by 43k • written 5.9 years ago by • 0
7
votes
8
replies
1.3k
views
Forum: Guidelines / Limits for Shared Bioinformatics Support
Core Shared-Resources Collaboration
updated 11 months ago by 43k • written 4.5 years ago by 8.2k
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
7
votes
5
replies
957
views
Forum: scRNA rising in popularity, what comes next?
scRNA
updated 11 months ago by 43k • written 4.1 years ago by ▴ 20
7
votes
7
replies
1.8k
views
Forum: Bioinformatician who was retaliated against after reporting discriminatory harassment - Please help me navigate getting out of the situation I'm in
Career advice
updated 29 days ago by ★ 2.5k • written 4 weeks ago by • 0
7
votes
4
replies
1.5k
views
Forum: Studying for a Bioinformatics degree
sequence R next-gen gene RNA-Seq
updated 11 months ago by 43k • written 4.3 years ago by ▴ 20
7
votes
6
replies
2.8k
views
7 follow
Forum: Should I specialise in bioinformatics?
career
updated 11 months ago by 43k • written 5.6 years ago by ▴ 10
7
votes
5
replies
1.8k
views
Forum: Which is better: webgestalt vs david?
webgestalt david
updated 11 months ago by 43k • written 5.2 years ago by ★ 9.4k
7
votes
8
replies
765
views
Forum: Bioinformatics career transition
career forum
updated 8 weeks ago by ★ 16k • written 8 weeks ago by ▴ 20
7
votes
4
replies
1.2k
views
Forum: Specific question on torturing the data until it confesses
ipa gene-set-enrichment statistics
updated 12 months ago by 43k • written 3.4 years ago by ▴ 330
7
votes
10
replies
1.8k
views
Forum: Current MCB major thinking of going into Bioinformatics
career
updated 11 months ago by 43k • written 5.7 years ago by • 0
7
votes
6
replies
767
views
Forum: where to work as a bioinformatician (NGS/IA)
employment omics ia ngs
updated 4 months ago by 43k • written 4 months ago by ▴ 20
7
votes
9
replies
1.1k
views
Forum: DEG analysis when not replicates are available
NOISeq RNA-Seq edgeR
updated 11 months ago by 43k • written 4.1 years ago by ★ 5.1k
7
votes
8
replies
2.0k
views
Forum: Would solving many Rosalind problems show your ability for this field in job-wise?
rosalind career
11 months ago by K • 0
6
votes
4
replies
429
views
Forum: Ideal PC configurations and operating system for bioinformatics laboratory
PC
12 days ago by Estevão ▴ 10
6
votes
4
replies
2.5k
views
Forum: Ru/Read Until in Nanopore sequencers
Oxford-Nanopore alignment sequencing
updated 11 months ago by 43k • written 4.2 years ago by ★ 1.7k
6
votes
5
replies
1.4k
views
7 follow
Forum: What do you think of sci-hub?
sci-hub
updated 11 months ago by 43k • written 4.4 years ago by • 0
6
votes
7
replies
1.3k
views
Forum: Questions going missing?
meta biostars
updated 12 months ago by 43k • written 6.6 years ago by 88k
6
votes
6
replies
1.3k
views
Forum: How can I deal with this publication issue?
publication
updated 11 months ago by 43k • written 6.1 years ago by ▴ 10
6
votes
5
replies
1.0k
views
Forum: Russian universities for the study of biomedicine
russian-university
updated 11 months ago by 43k • written 3.8 years ago by ▴ 30
6
votes
5
replies
1.9k
views
Forum: Stanford HCP MS Biomedical Informatics vs Johns Hopkins MS Bioinformatics
career
updated 11 months ago by 43k • written 4.3 years ago by ▴ 70
6
votes
5
replies
1.1k
views
Forum: A free temporary HPC service for bioinformatic analysis
HPC
updated 11 months ago by 43k • written 4.2 years ago by ▴ 340
6
votes
6
replies
2.5k
views
Forum: Trouble finding job with MS in Bioinformatics
next-gen
updated 11 months ago by 43k • written 6.0 years ago by ▴ 10
6
votes
3
replies
1.7k
views
Forum: lincRNA analysis pipeline and relevant database
lncRNA
updated 11 months ago by 43k • written 5.6 years ago by ★ 9.4k
6
votes
5
replies
2.3k
views
Forum: Maintaning internal or private installation of Biostar or a similar Q&A site
Biostars
6 months ago by tshtatland ▴ 190
6
votes
5
replies
7.8k
views
Forum: Converting GFF to GTF
GTF GFF
updated 11 months ago by 43k • written 4.2 years ago by 8.6k
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
6
votes
5
replies
960
views
Forum: Tips on: How to organise data on servers
genotype warehouse servers
updated 11 months ago by 43k • written 4.5 years ago by ▴ 110
6
votes
2
replies
687
views
Forum: how to start Bioinformatics?
basics
updated 5 months ago by ★ 27k • written 5 months ago by • 0
6
votes
6
replies
807
views
Forum: You have 3 days of zero obligations and expansive resources. What are you building?
hypothetical thought-experiment
9 weeks ago by jared.andrews07 ★ 16k
6
votes
5
replies
1.7k
views
Forum: Very generally speaking, what are valid criteria to decide that a sample is an outlier?
outliers
updated 12 months ago by 43k • written 3.4 years ago by ▴ 330
6
votes
1
reply
2.3k
views
Forum: How to become employable in Bioinformatics, starting with degree and experience in CS/Software Engineering?
computer-scientist software-engineer
updated 11 months ago by 43k • written 5.8 years ago by • 0
6
votes
5
replies
13k
views
Forum: Single-end sequencing versus paired-end
Assembly snp sequencing
updated 11 months ago by 43k • written 4.2 years ago by ▴ 20
6
votes
8
replies
4.0k
views
6 follow
Forum: Workstation : More RAM or Faster RAM
RAM Configuration workstation
updated 11 months ago by 43k • written 5.6 years ago by ▴ 20
5
votes
2
replies
406
views
Forum: Can questions and answers on biostars be asked only in English? Can't I use Russian for example?
language
updated 7 weeks ago by 54k • written 7 weeks ago by • 0
5
votes
8
replies
2.0k
views
7 follow
Forum: Ranking of Bioinformatics tools & resources by the number of users
bioinformatics-tools
updated 11 months ago by 43k • written 5.7 years ago by ▴ 40
5
votes
5
replies
941
views
Forum: What will happen to data analysts after COVID-19 pandemic
COVID
updated 11 months ago by 43k • written 4.1 years ago by ★ 4.3k
5
votes
4
replies
1.2k
views
Forum: Consider CodeOcean or other solutions for runnable Biostars answers?
CodeOcean how-to meta
updated 11 months ago by 43k • written 4.0 years ago by 22k
5
votes
3
replies
639
views
Forum: Binning the rare biosphere
metagenomics soil assembly techniques binning
updated 4 months ago by ★ 27k • written 4 months ago by ▴ 20
5
votes
6
replies
1.1k
views
Forum: COVID19 testing - can we/should we use NGS?
NGS covid19 diagnostics
updated 11 months ago by 43k • written 4.2 years ago by ★ 1.4k
5
votes
7
replies
1.8k
views
Forum: Research Bazaar 2018
course workshop
updated 12 months ago by 43k • written 6.4 years ago by 8.5k
5
votes
4
replies
1.0k
views
Forum: I always get the same Scholar Badge
meta
updated 11 months ago by 43k • written 6.1 years ago by 16k
5
votes
6
replies
1.3k
views
Forum: The best way to share scientific findings with community
Scientific-findings
updated 12 months ago by 43k • written 6.6 years ago by ★ 4.3k
5
votes
3
replies
1.4k
views
Forum: Seeking ideas and guidance for an undergraduate project
modelling drug-discovery neural-network
updated 11 months ago by 43k • written 5.6 years ago by ▴ 10
5
votes
2
replies
1.3k
views
Forum: ISMB bioinfo-core workshop call for lightning talks
conferences
updated 11 months ago by 43k • written 5.0 years ago by 5.3k
5
votes
4
replies
1.4k
views
Forum: Best BAM viewer in 2022
sam bam
updated 10 months ago by 43k • written 17 months ago by ▴ 70
414 results • Page 4 of 9
Recent Votes
The Biostar Handbook. A bioinformatics e-book for beginners.
The Biostar Handbook. A bioinformatics e-book for beginners.
Differential Expression with limma: Contrast and Design Matrix, combinatorial approach valid?
What is Deepvariant default filtering values ?
Answer: Filtering Multi-sample VCF file for all except one Genotype
Answer: Alphaphold 3 pLDDT coloring scheme in chimerax?
Comment: Benchmarking RNASeq Variant Calling Pipeline (Short Reads)
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Comment: Duplicated reads (IDs) from nanopore sequencing by GenoMax 142k
> I get the exact same read with the same ID and all more than once If you have short(er) reads you could be seeing secondary alignments. …
Answer: Duplicated reads (IDs) from nanopore sequencing by marco.barr ▴ 110
Hi, I'm also working with ONT data and with dorado. From experience I tell you that some versions of MInKNOW have bad management of fast5 f…
Comment: Problem with Calling Variants from RNA-Seq data by Esraa • 0
Yes, i specifically ran the RNA-seq best practices, and no i have not taken RNA editing into account considering this is not mentioned in t…
Comment: Problem with Calling Variants from RNA-Seq data by i.sudbery 19k
Have you accounted for A>I RNA editing?
Comment: Problem with Calling Variants from RNA-Seq data by Esraa • 0
**My references** Genome: https://ftp-trace.ncbi.nlm.nih.gov/ReferenceSamples/giab/release/references/GRCh38/GCA_000001405.15_GRCh38_no_al…
Answer: Getting differential ChIP-seq peaks between conditions after calling consensus p by ATpoint 82k
This has formally been investiated by a reputable group here: https://academic.oup.com/nar/article/42/11/e95/1442937 IIRC they think tha…
Comment: RNA seq analysis by Jacek ▴ 10
Thank you so much Matthias this is really helpful, I got insight from this. Have a nice day
Answer: Differential Expression with limma: Contrast and Design Matrix, combinatorial ap by dariober 14k
> Is this a statistically valid approach to compare the impact of any bacterial exposure and genotype? At a glance, it seems fine to me…
Comment: Filtering Multi-sample VCF file for all except one Genotype by Pierre Lindenbaum 161k
> Don't forget to follow up on your threads. If an answer was helpful, you should upvote it; if the answer resolved your question, you shou…
Answer: Filtering VCF files based on VAF giving incorrect results by Pierre Lindenbaum 161k
using vcfilterjdk: https://jvarkit.readthedocs.io/en/latest/VcfFilterJdk/ java -jar ${JVARKIT_DIST}/jvarkit.jar vcffilterjdk …
Comment: Applying the metacell2 algorithm using python by JACKY ▴ 140
I have one more question please. When reading the h5ad file at the very beginning, do I need to perform the usual scanpy normalization step…
Comment: Using Cutadapt to trim adapters from paired-end small RNA sequence data by melissa.joubert • 0
Thank you! This was going to be my next option - to simply use the Read_1 libraries for all samples. Can I ask about the second option you…
Comment: Filtering Multi-sample VCF file for all except one Genotype by schmince • 0
Thanks, that was exactly what i needed
Comment: Benchmarking RNASeq Variant Calling Pipeline (Short Reads) by Esraa • 0
Thank you! I will try searching for this more and see if it would fit my analysis purposes.
Comment: Benchmarking RNASeq Variant Calling Pipeline (Short Reads) by Esraa • 0
Thank you so much for answering! I actually found some studies doing it the way you mentioned. I ran the GATK best practices pipeline on t…
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