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772
votes
164
replies
128k
views
107 follow
News: The Biostar Handbook. A bioinformatics e-book for beginners.
training handbook
updated 7 weeks ago by 2.3k • written 7.0 years ago by 99k
122
votes
44
replies
10k
views
24 follow
News: Help Make Biostar Better! Add Your Feedback, Opinions And Suggestions.
meta biostars
updated 4 weeks ago by 41k • written 11.0 years ago by 99k
81
votes
39
replies
7.0k
views
11 follow
News: State Of Biostar - Future Directions (January 2013)
biostars
updated 9 months ago by 41k • written 10.9 years ago by 99k
59
votes
31
replies
4.4k
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 7 months ago by 41k • written 6.9 years ago by 10k
57
votes
24
replies
6.1k
views
14 follow
News: Join us in building a bioinformatics resource: The Biostar Handbook
biostar-handbook
updated 14 months ago by 41k • written 8.2 years ago by 99k
54
votes
24
replies
3.8k
views
12 follow
News: Big news from Microsoft. BASH on windows.
windows
updated 7 months ago by 41k • written 7.7 years ago by ★ 3.2k
51
votes
17
replies
3.7k
views
News: Biostars 3.0 is now under testing. It has groups, charms and other interesting features.
meta biostars
updated 9 months ago by 41k • written 8.7 years ago by 99k
48
votes
13
replies
25k
views
10 follow
News: The New Grch38 Human Genome Browser Has Arrived!
ucsc assembly GRCh38 hg38
updated 22 months ago by 41k • written 9.7 years ago by 28k
46
votes
16
replies
5.5k
views
12 follow
News: Google announces DeepVariant
genome deep-learning google
updated 6 months ago by 41k • written 6.0 years ago by ▴ 990
45
votes
19
replies
6.2k
views
8 follow
News: Gamestorming For Bioinformatics
gamestorming
updated 9 months ago by 41k • written 11.2 years ago by 28k
38
votes
8
replies
1.3k
views
6 follow
News: What happens when a bioinformatician has his own genome sequenced for $300?
DNAseq DNA WGS
updated 5 months ago by 35k • written 5 months ago by 10k
38
votes
7
replies
1.9k
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
4 months ago by David Langenberger 10k
33
votes
4
replies
6.6k
views
News: Rosalind: A Novel Bioinformatics Education Platform
education
updated 9 months ago by 41k • written 11.2 years ago by ▴ 330
33
votes
5
replies
3.6k
views
News: FINAL CALL: Epigenetics Workshop - DNA Methylation Data Analysis (some last seats available)
Epigenetics Workshop Bisulfite-Sequencing
updated 7 months ago by 41k • written 7.5 years ago by ▴ 460
32
votes
6
replies
13k
views
7 follow
News: Ncbi Releases Entrez Direct, The Entrez Utilities On The Unix Command Line
ncbi genbank pubmed command-line entrez
updated 9 months ago by 41k • written 9.8 years ago by 158k
27
votes
9
replies
3.9k
views
News: OSX 10.11 released 30th Sep will be "rootless"
mac osx
updated 14 months ago by 41k • written 8.2 years ago by 13k
27
votes
7
replies
3.4k
views
News: The Biostar Swarm: A Visualization
biostars
updated 9 months ago by 41k • written 10.8 years ago by 99k
25
votes
7
replies
2.6k
views
6 follow
News: Who qualifies to be a bioinformatician?
resume bioinformatician vc
updated 17 months ago by 41k • written 8.6 years ago by 158k
25
votes
7
replies
6.1k
views
News: Pubmed Commons : A System That Enables Researchers To Share Their Opinions About Scientific Publications
ncbi pubmed
updated 9 months ago by 41k • written 10.1 years ago by 158k
24
votes
21
replies
6.9k
views
9 follow
News: Misunderstood parameter of NCBI BLAST
blast alignment
updated 6 months ago by 41k • written 5.2 years ago by ★ 3.4k
24
votes
7
replies
4.3k
views
News: #Bioinformatics Crowdcoding
crowd-coding
updated 9 months ago by 41k • written 10.4 years ago by 158k
23
votes
7
replies
4.4k
views
News: Research accounts on GitHub
github git
updated 8 months ago by 41k • written 9.5 years ago by 158k
22
votes
9
replies
6.5k
views
News: Epigenetics Workshop - DNA Methylation Data Analysis
bisulfite-sequencing workshop epigenetics
updated 10 months ago by 41k • written 8.5 years ago by 10k
22
votes
10
replies
5.3k
views
News: samtools/bcftools/htslib 1.0 released
htslib samtools bcftools
updated 23 months ago by 41k • written 9.3 years ago by ★ 2.2k
22
votes
3
replies
2.9k
views
News: Biostar: 10,000 Question Milestone
meta
updated 9 months ago by 41k • written 10.5 years ago by 99k
21
votes
7
replies
7.6k
views
News: Survey: Rna-Seq Analysis For Differential Gene/Transcript Expression [Updated With Results]
transcript RNA-seq gene
updated 9 months ago by 41k • written 11.0 years ago by ▴ 250
21
votes
16
replies
5.8k
views
6 follow
News: Pandora's Toolbox - a collection of bioinformatics programs
Assembly alignment RNA-Seq
updated 20 months ago by 41k • written 8.9 years ago by ★ 1.1k
21
votes
11
replies
9.2k
views
6 follow
News: NovaSeq from Illumina (updated info)
illumina NovaSeq
updated 7 months ago by 41k • written 6.9 years ago by 136k
20
votes
3
replies
2.6k
views
News: Nature Comment: Core services: Reward bioinformaticians
career-path
updated 17 months ago by 41k • written 8.6 years ago by ★ 2.2k
19
votes
11
replies
6.7k
views
News: Solid Software Tools: Denovo Assembly/Xsq Tools Pipeline Mirrored At Biostar
SOLID
updated 9 months ago by 41k • written 11.2 years ago by 99k
19
votes
4
replies
2.3k
views
News: How to analyze NGS data: An overview of nine different IT solutions
NGS RNA-Seq DNA-Seq
updated 7 months ago by 41k • written 7.1 years ago by 10k
18
votes
3
replies
2.4k
views
News: LAST CALL: Next-Generation Sequencing Data Analysis: A Practical Introduction (Frankfurt, Germany) - 2 seats left
DNA-Seq NGS Workshop Variant-Calling
updated 16 months ago by 41k • written 6.7 years ago by 10k
18
votes
11
replies
3.8k
views
News: Full Genome Sequencing Service 30x whole human genome sequencing for $3,490 (project cancelled)
genome next-gen-sequencing
updated 23 months ago by 41k • written 9.2 years ago by ▴ 100
17
votes
9
replies
3.6k
views
News: My Ncbi Curriculum Vitae Web Application: Sciencv
ncbi
updated 9 months ago by 41k • written 10.2 years ago by 158k
17
votes
6
replies
8.8k
views
News: Final registration deadline: September 15th - Bioinformatics Hands-On NGS Data Analysis Workshops 2014
methylation RNA-seq
updated 8 months ago by 41k • written 9.7 years ago by 10k
17
votes
7
replies
8.8k
views
News: Upcoming NGS Workshop: A Beginner's Guide to NGS Data Analysis
workshop Assembly transcriptomics RNA-Seq
updated 20 months ago by 41k • written 9.0 years ago by 10k
16
votes
1
reply
4.8k
views
News: Samtools/htslib/bcftools 1-3 released
htslib samtools bcftools
updated 7 months ago by 41k • written 8.0 years ago by 104k
15
votes
4
replies
2.5k
views
News: Call For Nominations: 2013 Benjamin Franklin Award
benjamin-franklin-award award
updated 9 months ago by 41k • written 10.8 years ago by 158k
15
votes
18
replies
7.8k
views
6 follow
News: New Free Community Tutorial Website For Bioinformatics Learning
ChIP-seq genome snp RNA-seq
updated 9 months ago by 41k • written 10.4 years ago by ▴ 610
15
votes
4
replies
4.4k
views
News: Workshop: Genomic Data Visualization and Interpretation (Berlin, Germany)
dataviz GenVisR next-gen R
updated 7 months ago by 41k • written 6.7 years ago by ★ 2.4k
15
votes
2
replies
11k
views
News: Breaking News - Illumina MiniSeq
next-gen-sequencing
updated 16 months ago by 41k • written 7.9 years ago by ★ 1.3k
15
votes
3
replies
6.7k
views
News: Top Bioinformatics Contributions Of 2013
bioinformatics
updated 9 months ago by 41k • written 10.0 years ago by ★ 1.1k
14
votes
4
replies
3.2k
views
News: FULL: NGS Data Analysis Workshop for Beginners in Munich (29 June - 1 Juli 2016)
RNA-Seq next-gen NGS
updated 16 months ago by 41k • written 7.8 years ago by 10k
14
votes
2
replies
5.4k
views
News: Open Targets, identifying targets for drug development in the treatment of diseases.
database Drug open-targets
updated 7 months ago by 41k • written 7.5 years ago by ★ 5.2k
14
votes
1
reply
2.3k
views
News: The Gene Ontology Handbook (open access)
training handbook GO
updated 7 months ago by 41k • written 6.9 years ago by ▴ 740
14
votes
5
replies
3.2k
views
News: Science Article On Social Influence Bias On Voting Patterns ("Herding") With Impact On Biostar.
meta biostars
updated 9 months ago by 41k • written 10.3 years ago by 53k
14
votes
3
replies
3.6k
views
News: Updated: Conference/Symposium/Seminar/Workshop alert 2018-2019
seminar symposium conference
updated 6 months ago by 41k • written 5.5 years ago by 5.8k
14
votes
6
replies
6.9k
views
News: FINAL CALL: NGS Workshop - A Beginner's Guide to NGS Data Analysis (2 last seats)
NGS RNA-Seq workshop
updated 11 months ago by 41k • written 8.4 years ago by 10k
14
votes
11
replies
2.7k
views
6 follow
News: Announcing bioSyntax: Syntax highlighting for biological files
computational-biology
updated 6 months ago by 41k • written 5.9 years ago by ▴ 170
13
votes
9
replies
2.4k
views
7 follow
News: Inviting NEW Biostars moderators to join Biostars slack channel
slack moderator
7 weeks ago by GenoMax 136k
1,000 results • Page 1 of 20
Recent Votes
Answer: How should I run ssgsea analysis ?
Comment: Parsing XML file from dbGaP
Comment: Discrepancy in total number of bases in trimmed read1 and read2 files after BBDu
Comment: SPAdes error: finished abnormally, OS return value: 21
Comment: Plotting a pvalue threshold for an FDR corrected pvalue <.05 when thats not pres
Comment: unicycler error : [Errno 13] Permission denied:
Comment: unicycler error : [Errno 13] Permission denied:
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Popular Question to applepie • 0
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Comment: AttributeError: module 'collections' has no attribute 'Hashable' by jiyoung ▴ 20
Currently I am experiencing the same problem. Have you solved this?
Comment: Help doing differential expression analysis -experimental design and gProfiler T by rajabolacuan • 0
Good Information Sir
Answer: Viral genes not showing up in combined mouse+virus alignment by cook.675 ▴ 200
Hello I was curious to follow up and wonder if anyone knew why the viral genes are not showing up in the count matrix? I can't seem to solv…
Comment: Discrepancy in total number of bases in trimmed read1 and read2 files after BBDu by CTLong ▴ 10
That makes sense. Thanks for the reminder.
Comment: bwa mem hangs after a few thousand reads by GenoMax 136k
Then you probably are best served by talking with your local sys admins to see where the issue may be.
Comment: Discrepancy in total number of bases in trimmed read1 and read2 files after BBDu by GenoMax 136k
> even if tpe and tbo are trailing after adapter and quality trimming Priority/order of operations in coded in the program. Brian will be …
Comment: bwa mem hangs after a few thousand reads by cee28 • 0
Actually, I originally did both of those things that you suggested. My original command at the top of the post was submitted to our cluster…
Comment: Discrepancy in total number of bases in trimmed read1 and read2 files after BBDu by CTLong ▴ 10
The number of bases is still different even if `tpe` and `tbo` are trailing after adapter and quality trimming. So far for the RNA-seq proj…
Comment: Discrepancy in total number of bases in trimmed read1 and read2 files after BBDu by GenoMax 136k
No there should not be much impact unless one of the reads has become substantially short compared to its mate. Strictly speaking you don't…
Comment: bwa mem hangs after a few thousand reads by GenoMax 136k
> I am running this on a HPC cluster. This is a guess but if you are actually running this on a cluster then it is possible that you need …
Comment: Discrepancy in total number of bases in trimmed read1 and read2 files after BBDu by CTLong ▴ 10
Thanks GenoMax for the reply. That being said, does this difference in total bases between read1 and read2 have an effect in subsequent rea…
Comment: CHIPSEQ : Cut AND Run , DiffBind Parameters by DINESHR • 0
Here are my PCA results plotted through Diffbind and Correlation heat map by deeptools shows some clustering in the samples @atpoint ![e…
Comment: Plotting a pvalue threshold for an FDR corrected pvalue <.05 when thats not pres by dsull ★ 5.0k
Yeah, sometimes it looks "prettier" to plot p-value rather than adjusted p-value; although either one is technically ok to plot (even multi…
Comment: How to get unaligned reads and aligned reads into separate files from SAM/BAM? by rpolicastro 12k
I suppose if you really wanted to do it in one pass pysam would be an option. Courtesy of ChatGPT with a few modifications, and tested to s…
Comment: frequency plot for peaks by Ankit ▴ 400
what is your txdb? can you explain your experiment in detail?
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