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128k
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107 follow
News: The Biostar Handbook. A bioinformatics e-book for beginners.
training handbook
updated 8 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
11
votes
25
replies
5.6k
views
15 follow
News: Questions for the NCBI Next Generation Sequencing Online Workshop Can be Posted with the NCBI_NOW Tag
NCBI_NOW
updated 8 months ago by 41k • written 8.2 years ago by ▴ 330
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
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
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
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
12
votes
17
replies
3.8k
views
6 follow
News: A programming language for living cells [Cello]
dna sequence research language
updated 7 months ago by 41k • written 7.6 years ago by 11k
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
10
votes
17
replies
3.1k
views
7 follow
News: Tell us what you think of the ENA browser?
ena
updated 7 months ago by 41k • written 7.0 years ago by ★ 1.8k
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
6
votes
13
replies
1.8k
views
News: Ensembl reduced functionality: 10th March-16th April 2020
BLAT VEP Ensembl service
updated 5 months ago by 41k • written 3.8 years ago by ★ 2.3k
11
votes
13
replies
2.9k
views
News: Ensembl datacentre shut-down: Friday 26th August - Tuesday 30th August 2016
Maintenance Ensembl
updated 7 months ago by 41k • written 7.3 years ago by ★ 2.3k
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
11
votes
11
replies
1.6k
views
8 follow
News: Python Data Visualization Course. Last 3 spots left
next-gen
updated 6 months ago by 41k • written 5.0 years ago by ★ 2.4k
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
7
votes
11
replies
1.8k
views
News: Bringing the power of Big Data to biomedical researchers
NGS biomedical-research
updated 6 months ago by 41k • written 6.3 years ago by ▴ 100
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
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
6
votes
9
replies
4.1k
views
News: 1000 Genomes : The Initial Phase 3 variant list and phased genotypes.
1000genomes
updated 8 months ago by 41k • written 9.4 years ago by 158k
0
votes
9
replies
2.2k
views
News: Practical Genomics: From Biology to Biostatistics Workshop (Baltimore, MD)
workshop
updated 8 months ago by 41k • written 9.4 years ago by 10k
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
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
11
votes
9
replies
7.4k
views
News: NovaSeq quality analysis
sequencing
updated 6 months ago by 41k • written 6.4 years ago by 19k
12
votes
8
replies
6.9k
views
News: rRNA Depletion / Poly-A Selection Responsible for RNA-seq Bias
rRNA-depletion RNA-seq-bias
updated 8 months ago by 41k • written 9.4 years ago by ▴ 640
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
8
votes
8
replies
2.7k
views
News: Coronavirus Genome Analysis: a new volume in the Biostar Handbook
biostar-handbook education
updated 5 months ago by 41k • written 3.7 years ago by 99k
12
votes
8
replies
3.3k
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 9 months ago by 41k • written 10.4 years ago by 10k
7
votes
8
replies
1.7k
views
News: A new Stack Exchange site for Research Computing
unix linux
updated 6 months ago by 41k • written 6.0 years ago by ▴ 690
13
votes
8
replies
2.6k
views
News: NCBI is going to eliminate GI identifiers
ncbi GI
updated 7 months ago by 41k • written 7.7 years ago by ★ 2.9k
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
10
votes
7
replies
2.2k
views
News: Free draft copy of book on bioinformatics tools
alignment Assembly RNA-seq next-gen
updated 10 months ago by 41k • written 8.5 years ago by ★ 1.1k
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
6
votes
7
replies
2.0k
views
News: NCBI wants to remove quality scores from SRA
quality-scores trimming Assembly genome SRA
updated 5 months ago by 41k • written 3.4 years ago by ▴ 40
2
votes
7
replies
1.6k
views
News: Beyond pest control: What can we learn from parasites?
docking heme parasitism in-silico
updated 6 months ago by 41k • written 4.7 years ago by 53k
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
2
votes
7
replies
1.5k
views
News: Bioinformatics workshop or training courses
RNA-Seq next-gen ChIP-Seq
updated 6 months ago by 41k • written 5.3 years ago by ▴ 140
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
6
votes
7
replies
5.2k
views
News: Illumina Nextseq 500 And Hiseq X Ten: Newer Tech Lowering Cost Per Mbp
Illumina
updated 9 months ago by 41k • written 9.9 years ago by ▴ 640
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
12
votes
7
replies
3.7k
views
News: Welcome Ensembl REST with more endpoints!
ensembl rest-api
updated 8 months ago by 41k • written 9.1 years ago by ★ 5.2k
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
1
vote
6
replies
1.0k
views
News: Course - FLOW CYTOMETRY ANALYSIS WITH R/BIOCONDUCTOR
Bioconductor FlowCytometry R
updated 10 months ago by ▴ 80 • written 11 months ago by ★ 2.4k
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
2
votes
6
replies
2.7k
views
News: Master in integrated systems biology / Luxembourg
systems-biology Masters-course
updated 6 months ago by 41k • written 6.3 years ago by ▴ 130
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
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
8
votes
6
replies
1.3k
views
News: Illumina to Acquire Pacific Biosciences
pacbio illumina
updated 6 months ago by 41k • written 5.1 years ago by 99k
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
Popular Question to saipra003 ▴ 10
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Recent Replies
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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