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421 results • Page 3 of 9
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3
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7
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2.9k
views
Forum: Strategies for group submisions to SRA (BioProject)
NCBI SRA next-gen Archive Core-Facility
updated 11 months ago by 43k • written 5.6 years ago by ★ 2.7k
2
votes
6
replies
3.1k
views
Forum: RIP CentOS, CentOS 8 to be EOL'd in 2021
centos linux-distro os
updated 11 months ago by 43k • written 3.4 years ago by 11k
0
votes
0
replies
925
views
Forum: MAGs annotation tools
annotation genome
updated 11 months ago by 43k • written 4.3 years ago by ▴ 50
4
votes
5
replies
1.3k
views
Forum: Is Bioinformatics enough? Is it taken seriously?
career
updated 11 months ago by 43k • written 3.5 years ago by • 0
1
vote
2
replies
852
views
Forum: bioinformatics career choice - could use guidance
career
updated 11 months ago by 43k • written 3.5 years ago by • 0
19
votes
7
replies
1.2k
views
9 follow
Forum: DNA in pixels
genome alignment sequencing
updated 11 months ago by 43k • written 3.5 years ago by ▴ 30
0
votes
1
reply
588
views
Forum: What are the best online tutoring sites for biology help?
Biology
updated 11 months ago by 43k • written 3.5 years ago by • 0
4
votes
1
reply
731
views
Forum: Help with Bioinformatics Course
cancer
updated 11 months ago by 43k • written 3.6 years ago by • 0
0
votes
1
reply
688
views
Forum: MSPH (Medical Microbiology) student with interest in Bioinformatics
medical-microbiology microbiology
updated 11 months ago by 43k • written 3.6 years ago by • 0
0
votes
0
replies
711
views
Forum: Interview: Identifying the allelic expression of INDEL mutations
SNP RNA-Seq alignment
updated 11 months ago by 43k • written 3.6 years ago by • 0
73
votes
14
replies
4.3k
views
12 follow
Forum: Things you wish you knew when entering the bioinformatics field
pitfalls advice
updated 11 months ago by 43k • written 3.6 years ago by ★ 16k
0
votes
4
replies
1.0k
views
Forum: Genes inhibiting each other's expression
Gene-expression
updated 11 months ago by 43k • written 3.6 years ago by ▴ 60
9
votes
6
replies
1.5k
views
Forum: How to start my career in Bioinformatics
career
updated 11 months ago by 43k • written 3.7 years ago by ▴ 10
1
vote
0
replies
714
views
Forum: Open Project in Bioinformatics
genome
updated 11 months ago by 43k • written 3.7 years ago by ▴ 10
16
votes
6
replies
8.2k
views
7 follow
Forum: What computer skills should I put on my resume?
resume genome
updated 12 months ago by 43k • written 6.4 years ago by ▴ 30
0
votes
2
replies
1.2k
views
Forum: Welcome to join our Wechat group for Bioinformatics!
single-cell ChIP-Seq genome algorithm RNA-Seq
updated 11 months ago by 43k • written 3.7 years ago by ▴ 160
12
votes
2
replies
3.0k
views
Forum: List of genome annotation tools (>140)
gene genome
updated 11 months ago by 43k • written 4.7 years ago by 8.6k
13
votes
7
replies
1.3k
views
Forum: Feedback for my python package to combine results from multiple classifiers
annotation protein python machine-learning
updated 11 months ago by 43k • written 3.7 years ago by ▴ 110
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
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
1
vote
1
reply
595
views
Forum: Bioinfo and Microbio
snp gene genome next-gen
updated 11 months ago by 43k • written 3.8 years ago by • 0
23
votes
11
replies
2.1k
views
9 follow
Forum: file and directory management best practices
file-management
updated 11 months ago by 43k • written 3.7 years ago by ▴ 140
1
vote
4
replies
1.8k
views
Forum: What do you want to learn about bioinformatics?
course education
updated 11 months ago by 43k • written 5.4 years ago by ▴ 120
2
votes
8
replies
1.7k
views
7 follow
Forum: Which tools do you miss?
software
updated 11 months ago by 43k • written 3.7 years ago by ▴ 110
3
votes
2
replies
1.2k
views
Forum: Preferred cloud environment for genomics.
next-gen-sequencing RNA-Seq alignment
updated 11 months ago by 43k • written 3.8 years ago by ▴ 10
1
vote
13
replies
2.8k
views
Forum: Bioinformatics computer upgrade help
computer
updated 11 months ago by 43k • written 3.8 years ago by ▴ 50
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
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
2
votes
9
replies
1.4k
views
Forum: 'No code' data manipulation tools for bioinformatics
software
updated 11 months ago by 43k • written 3.9 years ago by • 0
1
vote
2
replies
1.1k
views
Forum: Metagenomics Tutoring Opportunity
metagenomics microbial tutoring
updated 11 months ago by 43k • written 5.4 years ago by ▴ 30
23
votes
12
replies
2.0k
views
6 follow
Forum: Whole-Exome Analysis on a Mainstream Desktop PC
NGS whole-exome
updated 11 months ago by 43k • written 3.9 years ago by 11k
2
votes
9
replies
1.4k
views
Forum: Any good idea for bioinfo final presentation?
R
updated 11 months ago by 43k • written 3.9 years ago by • 0
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 3.9 years ago by 22k
0
votes
5
replies
1.1k
views
Forum: Advice for a start in Bioinformatics
R next-gen Python
updated 11 months ago by 43k • written 4.0 years ago by • 0
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
0
votes
0
replies
1.1k
views
Forum: ssDNA Aptamer structure prediction
aptamer selex
updated 11 months ago by 43k • written 4.0 years ago by • 0
0
votes
0
replies
789
views
Forum: Where can I find a one-year fellowship in bioinformatics?
Bioinformatics-Minor Postodoctoral-Fellowship
updated 11 months ago by 43k • written 4.0 years ago by • 0
22
votes
8
replies
2.0k
views
10 follow
Forum: Is there any online course for bioinformatics right now or in the next two or three months?
online-course mooc
updated 11 months ago by 43k • written 4.1 years ago by ▴ 50
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
3
votes
6
replies
2.2k
views
Forum: Choosing the appropriate test for differential analysis: Limma or Mann-Whitney (with BH correction)? Test for normality
R Shapiro-Wilk Limma Mann-Whitney
updated 11 months ago by 43k • written 4.0 years ago by ▴ 40
1
vote
7
replies
1.6k
views
Forum: Best online certificates / masters for Bioinformatics
learning certification courses online-training
updated 11 months ago by 43k • written 4.0 years ago by • 0
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
0
votes
2
replies
1.4k
views
Forum: Alternative of Ingenuity Pathway Analysis - QIAGEN to filter Biomarkers
RNA-Seq
updated 11 months ago by 43k • written 4.0 years ago by • 0
7
votes
8
replies
2.4k
views
Forum: Virus Genome Length and GC Content of SARS-COV-2 causing COVID-19
sequence genome
updated 11 months ago by 43k • written 4.1 years ago by ▴ 30
1
vote
0
replies
589
views
Forum: New to bioinformatics
R Python
updated 11 months ago by 43k • written 4.0 years ago by ▴ 10
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
0
votes
1
reply
2.2k
views
Forum: How's the bioinformatics engineering path? How to become a bioinformatics engineer?
machine-learning Bioinformatics-engineer
updated 11 months ago by 43k • written 4.0 years ago by ▴ 70
0
votes
2
replies
1.0k
views
Forum: Suffix Arrays: looking for an instructive algorithm of SA construction for teaching
suffix-arrays linear-time teaching algorithm
updated 11 months ago by 43k • written 4.0 years ago by 54k
0
votes
0
replies
747
views
Forum: make sense out of Whole Exome Sequencing on cancer cell lines
next-gen-sequencing Whole-Exome-Sequencing SNP
updated 11 months ago by 43k • written 4.0 years ago by ▴ 20
0
votes
2
replies
900
views
Forum: 1st-year grad student, plant biology lab, new to bioinformatics -- where to begin?
microarray plant-biology
updated 11 months ago by 43k • written 4.0 years ago by • 0
421 results • Page 3 of 9
Recent Votes
Answer: Practical Haplotype Graph v2 not finding correct paths
A: Looking For A Way To Count Total Length Of Regions Of Bed File
The Biostar Herald for Monday, May 06, 2024
Answer: Long reads and fixing of mate-pair issues/marking duplicates with samtools
A: Find consensus overlap between many bed files
Comment: RNA seq analysis
C: What is the best practice of scRNA workflow for multiple patients and samples us
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Recent Replies
Answer: Splitting Seurat object by sample layers by bk11 ★ 2.4k
You can do the following- Idents(SeuratObj) <- "orig.ident" control_set <- subset(SeuratObj, idents = c("counts.control","data.…
Comment: Galaxy StringTie error by GenoMax 142k
> I have sent a bug report to the Galaxy administrator If you have not done so please post this in Galaxy help forum for directed help: h…
Comment: 44% Successfully Assigned Fragments with featureCounts after 85% uniquely mapped by Thind amarinder ▴ 340
Wondering, if it was total RNAseq data? or ployA
Comment: RNA seq analysis by Matthias Zepper 4.6k
It is still obscure to me how many different tissues you would like to include into your comparison and what your intended design is. To …
Comment: Getting the coding_sequence.fasta from the .gff file from the AUGUSTUS gene pred by Juke34 8.6k
You can get a look here https://www.biostars.org/p/9465973/
Answer: Mouse ribosome sequences in fasta format by GenoMax 142k
A version of the mouse rDNA repeat can be found here: https://www.ncbi.nlm.nih.gov/nuccore/BK000964 Use the dropdown menu at top-left t…
Comment: Kraken2 database by Christopher • 0
Hello, Mathew. Firstly, thank you for answering my question. **Sorry, what analysis are you trying to perform with these databases?** I a…
Comment: Benchmarking RNASeq Variant Calling Pipeline (Short Reads) by GenoMax 142k
As long as it is the same GIAB sample you could compare your SNP with the SNP's available for the whole genome set.
Comment: Single-cell RNA-seq FindMarker and EnhancedVolcano Plot: most genes are low -log by yau • 0
Dear Mensur, Thanks so much for your reply!! In my case, I got 1 control(healthy) and 2 disease mouse Single cell RNA-sew data, so I …
Comment: BWA alignment by ATpoint 82k
The relevant code line is precisely the same as in the question.
Answer: imputation through beagle by dthorbur ★ 1.9k
Building a reference panel from the samples you intend to impute seems like a very circular approach. Plus, GBS is a reduced representation…
Answer: Single-cell RNA-seq FindMarker and EnhancedVolcano Plot: most genes are low -log by Mensur Dlakic ★ 27k
You seem to have too stringent of a p-value cutoff (1e-5). Hopefully you get the concept of how the interplay of `-log10P-value` and `log2F…
Comment: Single-cell RNA-seq FindMarker and EnhancedVolcano Plot: most genes are low -log by yau • 0
![enter image description here][1] [1]: /media/images/7199a665-b13a-40c8-a065-313cf2b7
Answer: Using samtools with GCS (google cloud storage) on a docker container seems to gi by aw7 ▴ 280
This is a bit late, but the first thing to go is to run `samtools --version` and make sure the docker samtools is configured with the the G…
Answer: Long reads and fixing of mate-pair issues/marking duplicates with samtools by aw7 ▴ 280
I do not think `samtools fixmate` and `markdup` are going to work on PacBio long reads. `fixmate` is for setting and repairing mate inform…
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