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News: The Biostar Handbook. A bioinformatics e-book for beginners.
training handbook
updated 6 weeks ago by 3.0k • written 7.9 years ago by 101k
122
votes
44
replies
12k
views
24 follow
News: Help Make Biostar Better! Add Your Feedback, Opinions And Suggestions.
meta biostars
updated 12 months ago by 44k • written 11.9 years ago by 101k
81
votes
39
replies
8.3k
views
11 follow
News: State Of Biostar - Future Directions (January 2013)
biostars
updated 20 months ago by 44k • written 11.8 years ago by 101k
59
votes
31
replies
5.4k
views
12 follow
News: Example of how bioinformaticians can publish in Scientific Reports (by nature publishing group) using publicly available NGS data
publication NGS
updated 18 months ago by 44k • written 7.8 years ago by 11k
11
votes
25
replies
6.7k
views
15 follow
News: Questions for the NCBI Next Generation Sequencing Online Workshop Can be Posted with the NCBI_NOW Tag
NCBI_NOW
updated 19 months ago by 44k • written 9.1 years ago by ▴ 330
54
votes
24
replies
4.5k
views
12 follow
News: Big news from Microsoft. BASH on windows.
windows
updated 19 months ago by 44k • written 8.6 years ago by ★ 3.2k
57
votes
24
replies
6.9k
views
14 follow
News: Join us in building a bioinformatics resource: The Biostar Handbook
biostar-handbook
updated 2.1 years ago by 44k • written 9.1 years ago by 101k
24
votes
21
replies
8.2k
views
9 follow
News: Misunderstood parameter of NCBI BLAST
blast alignment
updated 17 months ago by 44k • written 6.1 years ago by ★ 3.4k
45
votes
19
replies
6.9k
views
8 follow
News: Gamestorming For Bioinformatics
gamestorming
updated 20 months ago by 44k • written 12.1 years ago by 28k
15
votes
18
replies
8.5k
views
6 follow
News: New Free Community Tutorial Website For Bioinformatics Learning
ChIP-seq genome snp RNA-seq
updated 20 months ago by 44k • written 11.3 years ago by ▴ 610
51
votes
17
replies
4.3k
views
News: Biostars 3.0 is now under testing. It has groups, charms and other interesting features.
meta biostars
updated 20 months ago by 44k • written 9.6 years ago by 101k
12
votes
17
replies
4.5k
views
6 follow
News: A programming language for living cells [Cello]
dna sequence research language
updated 19 months ago by 44k • written 8.6 years ago by 11k
10
votes
17
replies
3.7k
views
7 follow
News: Tell us what you think of the ENA browser?
ena
updated 18 months ago by 44k • written 8.0 years ago by ★ 1.8k
21
votes
16
replies
6.9k
views
6 follow
News: Pandora's Toolbox - a collection of bioinformatics programs
Assembly alignment RNA-Seq
updated 2.6 years ago by 44k • written 9.8 years ago by ★ 1.1k
46
votes
16
replies
6.2k
views
12 follow
News: Google announces DeepVariant
genome deep-learning google
updated 17 months ago by 44k • written 6.9 years ago by ▴ 990
6
votes
13
replies
2.3k
views
News: Ensembl reduced functionality: 10th March-16th April 2020
BLAT VEP Ensembl service
updated 17 months ago by 44k • written 4.7 years ago by ★ 2.4k
11
votes
13
replies
3.5k
views
News: Ensembl datacentre shut-down: Friday 26th August - Tuesday 30th August 2016
Maintenance Ensembl
updated 19 months ago by 44k • written 8.2 years ago by ★ 2.4k
48
votes
13
replies
26k
views
10 follow
News: The New Grch38 Human Genome Browser Has Arrived!
ucsc assembly GRCh38 hg38
updated 2.8 years ago by 44k • written 10.7 years ago by 28k
7
votes
11
replies
2.2k
views
News: Bringing the power of Big Data to biomedical researchers
NGS biomedical-research
updated 17 months ago by 44k • written 7.2 years ago by ▴ 100
19
votes
11
replies
7.2k
views
News: Solid Software Tools: Denovo Assembly/Xsq Tools Pipeline Mirrored At Biostar
SOLID
updated 20 months ago by 44k • written 12.2 years ago by 101k
14
votes
11
replies
3.2k
views
6 follow
News: Announcing bioSyntax: Syntax highlighting for biological files
computational-biology
updated 17 months ago by 44k • written 6.8 years ago by ▴ 170
21
votes
11
replies
9.8k
views
6 follow
News: NovaSeq from Illumina (updated info)
illumina NovaSeq
updated 18 months ago by 44k • written 7.8 years ago by 146k
18
votes
11
replies
4.3k
views
News: Full Genome Sequencing Service 30x whole human genome sequencing for $3,490 (project cancelled)
genome next-gen-sequencing
updated 2.8 years ago by 44k • written 10.1 years ago by ▴ 100
11
votes
11
replies
2.0k
views
8 follow
News: Python Data Visualization Course. Last 3 spots left
next-gen
updated 17 months ago by 44k • written 6.0 years ago by ★ 2.6k
22
votes
10
replies
5.8k
views
News: samtools/bcftools/htslib 1.0 released
htslib samtools bcftools
updated 2.9 years ago by 44k • written 10.2 years ago by ★ 2.2k
8
votes
10
replies
4.3k
views
News: New versions of Minia and DSK (2.0.x)
minia dsk assembly gatb
updated 2.6 years ago by 44k • written 9.7 years ago by ★ 1.5k
0
votes
9
replies
2.5k
views
News: Practical Genomics: From Biology to Biostatistics Workshop (Baltimore, MD)
workshop
updated 20 months ago by 44k • written 10.3 years ago by 10k
27
votes
9
replies
4.3k
views
News: OSX 10.11 released 30th Sep will be "rootless"
mac osx
updated 2.1 years ago by 44k • written 9.1 years ago by 13k
24
votes
9
replies
679
views
News: Next-Generation Sequencing Data Analysis: A Practical Introduction (September 2-4 in Munich, Germany)
DNAseq Workshop RNAseq
3 months ago by David Langenberger 11k
11
votes
9
replies
8.0k
views
News: NovaSeq quality analysis
sequencing
updated 17 months ago by 44k • written 7.4 years ago by 20k
6
votes
9
replies
4.5k
views
News: 1000 Genomes : The Initial Phase 3 variant list and phased genotypes.
1000genomes
updated 20 months ago by 44k • written 10.4 years ago by 164k
22
votes
9
replies
7.1k
views
News: Epigenetics Workshop - DNA Methylation Data Analysis
bisulfite-sequencing workshop epigenetics
updated 22 months ago by 44k • written 9.4 years ago by 11k
13
votes
9
replies
2.8k
views
7 follow
News: Inviting NEW Biostars moderators to join Biostars slack channel
slack moderator
13 months ago by GenoMax 146k
17
votes
9
replies
4.0k
views
News: My Ncbi Curriculum Vitae Web Application: Sciencv
ncbi
updated 20 months ago by 44k • written 11.1 years ago by 164k
12
votes
8
replies
7.4k
views
News: rRNA Depletion / Poly-A Selection Responsible for RNA-seq Bias
rRNA-depletion RNA-seq-bias
updated 20 months ago by 44k • written 10.3 years ago by ▴ 650
8
votes
8
replies
3.2k
views
News: Coronavirus Genome Analysis: a new volume in the Biostar Handbook
biostar-handbook education
updated 17 months ago by 44k • written 4.7 years ago by 101k
7
votes
8
replies
4.3k
views
News: Next-Gen Sequencing Tutorials On Cubelp (Cranfield Bioinformatics Electronic Learning Platform)
genome chip-seq snp assembly
updated 2.1 years ago by 44k • written 11.2 years ago by ▴ 610
13
votes
8
replies
2.9k
views
News: NCBI is going to eliminate GI identifiers
ncbi GI
updated 19 months ago by 44k • written 8.6 years ago by ★ 2.9k
38
votes
8
replies
1.9k
views
6 follow
News: What happens when a bioinformatician has his own genome sequenced for $300?
DNAseq DNA WGS
updated 16 months ago by 35k • written 16 months ago by 11k
12
votes
8
replies
3.6k
views
News: 'Potential Rna-Dna Binding Site In Alu Repeat', Or 'Why Should I Allow Multiple Mapping Positions When Analyzing Chipseq Data?'
chipseq rna
updated 20 months ago by 44k • written 11.3 years ago by 11k
7
votes
8
replies
2.1k
views
News: A new Stack Exchange site for Research Computing
unix linux
updated 17 months ago by 44k • written 6.9 years ago by ▴ 690
10
votes
7
replies
2.5k
views
News: Free draft copy of book on bioinformatics tools
alignment Assembly RNA-seq next-gen
updated 21 months ago by 44k • written 9.5 years ago by ★ 1.1k
38
votes
7
replies
2.6k
views
News: 2 last seats available - 7th Berlin Summer School in NGS Data Analysis (September 4-8 in Berlin)
Transcriptomics DNA-Seq Variant-Calling RNA-Seq
15 months ago by David Langenberger 11k
6
votes
7
replies
5.7k
views
News: Illumina Nextseq 500 And Hiseq X Ten: Newer Tech Lowering Cost Per Mbp
Illumina
updated 20 months ago by 44k • written 10.8 years ago by ▴ 650
24
votes
7
replies
4.6k
views
News: #Bioinformatics Crowdcoding
crowd-coding
updated 20 months ago by 44k • written 11.3 years ago by 164k
25
votes
7
replies
3.1k
views
6 follow
News: Who qualifies to be a bioinformatician?
resume bioinformatician vc
updated 2.3 years ago by 44k • written 9.5 years ago by 164k
21
votes
7
replies
8.0k
views
News: Survey: Rna-Seq Analysis For Differential Gene/Transcript Expression [Updated With Results]
transcript RNA-seq gene
updated 20 months ago by 44k • written 11.9 years ago by ▴ 250
6
votes
7
replies
4.7k
views
News: New in DiffBind: dba.plotProfile() - Peak profiles and profile heatmaps
DiffBind ChIP-seq deepTools visualization ATAC-seq
2.1 years ago by Rory Stark ★ 2.1k
2
votes
7
replies
1.9k
views
News: Beyond pest control: What can we learn from parasites?
docking heme parasitism in-silico
updated 17 months ago by 44k • written 5.6 years ago by 55k
13
votes
7
replies
6.1k
views
News: Free HiSeq X Ten human genome fastq test data
HiSeq-X-Ten Human-genome Fastq next-gen
updated 2.9 years ago by 44k • written 10.3 years ago by ★ 1.8k
1,000 results • Page 1 of 20
Recent Votes
Comment: Finding Differential Phosphosites in TMT Phosphoproteomics Data
Answer: Compare Two Sigle-cell Sample for Differentially Expressed Genes (DEGs). How?
How to Use Biostars, Part-I: Questions, Answers, Comments and Replies
A: How do I ask a question on Biostars?
Answer: How to Use Biostars, Part-I: Questions, Answers, Comments and Replies
Answer: How to Use Biostars, Part-I: Questions, Answers, Comments and Replies
Answer: How to Use Biostars, Part-I: Questions, Answers, Comments and Replies
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Answer: Compare Two Sigle-cell Sample for Differentially Expressed Genes (DEGs). How? by ATpoint 85k
> But How could I know if the difference comes from sample instead of sequencing runs or cohort-driven batch effect? You cannot. It's pe…
Comment: Comparing GSEA mutant data to wild type by conmul • 0
Sorry that it was unclear in the post. The data is all CRISPR gene effect scores from DepMap. The 'significant genes' as mentioned in the p…
Comment: How to determine whether it is 10x data by king • 0
Thank you for your answer, it's very inspiring.
Comment: Inquiry about depth of coverage and copy number variation by Chen • 0
Thanks Pierre, I was actually thinking about the duplicate PCR reads and didn't explain it properly. I have found a post mentioning that qu…
Comment: Can a read be aligned more than once? by GenoMax 146k
Yes a read can be aligned more than once (I don't specifically know about gam/gaf). It would be called a "multi-mapping" read. You could im…
Comment: Statistical test to be used for dataset by allingt • 0
The choice of test depends on the types of variables involved and the hypothesis you have. But most importantly on the question you want am…
Comment: dittoHeatmap; adding column labels on the heatmap by jared.andrews07 ★ 18k
I'd consider making a [block annotation](https://jokergoo.github.io/ComplexHeatmap-reference/book/heatmap-annotations.html#block-annotation…
Comment: Comparing GSEA mutant data to wild type by allingt • 0
What do you mean by "significant gene"? How did you perform GSEA and on how did you rank your genes for it? From guesswork I might initiall…
Comment: Genes of Interest in a Multi-Tissue Analysis by allingt • 0
The DESeq2 manual tells us that the object class of vst() output is a subclass of RangedSummarizedExperiment. I suspect the methods applica…
Comment: WGCNA: Why are my brown, yellow, and other modules not visible in the gene dendr by allingt • 0
Did you perform blockwise module detection by any chance? Are your results object's contents sorted in blocks?
Comment: Why does WGCNA use weighted correlation instead of Pearson correlation? by allingt • 0
The WGCNA implementation by Langfelder and Horvath provides various correlation methods to create the initial correlation matrix. I don't t…
Comment: dittoHeatmap; adding column labels on the heatmap by Varun Gupta ★ 1.3k
any idea, how can I display the labels Pre and POst on the top of the heatmap? I am looking at complexheatmap package as to how they displa…
Comment: How can I determine the p-value of genes within each identified module in WGCNA? by allingt • 0
What p-value do you mean? When and how did you calculate it?
Answer: What is a genomic range that would almost always get decent WGS coverage but is by i.sudbery 20k
What about some of the well known enhancer regions, the globin locus LCR? Likely to be highly sequenceable, and yet not on exome panels.
Answer: Using NumReads column of quants.genes.sf file to build DESeq2 input by i.sudbery 20k
One of the improvements that the using the `salmon` -> `tximport` -> `DESeq2` pipeline, over just a `counts`->`DESeq2` pipeline is the abil…
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