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News: fastp 0.22 released, with new FASTQ deduplication feature.
fastp
updated 9 months ago by 43k • written 2.7 years ago by ★ 2.5k
19
votes
4
replies
2.5k
views
News: How to analyze NGS data: An overview of nine different IT solutions
NGS RNA-Seq DNA-Seq
updated 12 months ago by 43k • written 7.5 years ago by 11k
0
votes
0
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2.5k
views
News: Nature Genetics - DNA Methyloma Analysis in Burkitt and follicular lymphomas
workshop NGS epigenetics epigenomics
updated 2.4 years ago by 43k • written 8.5 years ago by 11k
2
votes
0
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2.5k
views
News: Course: Applied Statistics and Bioinformatics with R and Bioconductor. (Berlin, 22-26 January 2018)
Statistics R BioCounductor
updated 11 months ago by 43k • written 6.6 years ago by ▴ 20
12
votes
3
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2.4k
views
News: Google Summer of Code and Open Bioinformatics Foundation is looking for students
GSoC open-source
updated 12 months ago by 43k • written 8.1 years ago by 8.3k
3
votes
0
replies
2.4k
views
News: Samtools/htslib/bcftools 1.1 released
htslib samtools
updated 13 months ago by 43k • written 9.6 years ago by 104k
0
votes
0
replies
2.4k
views
News: Total RNA Commercial Kit Comparison Study
microarray NGS RNA-Seq qPCR
updated 13 months ago by 43k • written 9.4 years ago by ▴ 40
0
votes
0
replies
2.4k
views
News: WORKSHOP - Landscape genetic data analysis using R
genome R RNA-Seq
updated 11 months ago by 43k • written 7.1 years ago by ▴ 110
6
votes
3
replies
2.4k
views
News: Become a Professional Biinformatician in NGS, Microarray in very fair price. Register for ArrayGen training program as soon as possible to get good a…
ChIP-Seq next-gen RNA-Seq
updated 12 months ago by 43k • written 7.2 years ago by • 0
14
votes
1
reply
2.4k
views
News: The Gene Ontology Handbook (open access)
training handbook GO
updated 12 months ago by 43k • written 7.3 years ago by ▴ 740
0
votes
0
replies
2.4k
views
News: Intro to Python for Biologists
next-gen RNA-Seq SNP
updated 11 months ago by 43k • written 6.4 years ago by ▴ 110
2
votes
0
replies
2.4k
views
News: The NAR annual Web Server Issue is here..
web-servers
updated 13 months ago by 43k • written 8.8 years ago by ★ 5.1k
11
votes
2
replies
2.4k
views
News: Ensembl 76 is out
Genome-browser Ensembl
updated 2.4 years ago by 43k • written 9.7 years ago by 23k
0
votes
1
reply
2.4k
views
News: Hands-on training in Bioinformatics and Biomedical Data Science
NGS training
updated 11 months ago by 43k • written 5.6 years ago by ▴ 10
2
votes
0
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2.4k
views
News: Bioinformatics Specialization on Coursera is On Demand
Assembly education alignment sequencing RNA-Seq
updated 12 months ago by 43k • written 7.9 years ago by ▴ 50
1
vote
2
replies
2.4k
views
News: Workshop: Metagenomics, Metatranscriptomics, and multi'omics for microbial community studies (9-13 April 2018 in Berlin)
Metatranscriptomics Metagenomics
updated 11 months ago by 43k • written 6.2 years ago by ★ 2.5k
1
vote
1
reply
2.4k
views
News: Bioinformatics for Cancer Genomics Workshop
Cancer-Genomics
updated 21 months ago by 43k • written 8.2 years ago by ▴ 30
4
votes
0
replies
2.4k
views
News: Upcoming Workshop: Ensembl Perl APIs
ensembl APIs Perl workshops
updated 13 months ago by 43k • written 9.5 years ago by ★ 5.2k
3
votes
4
replies
2.4k
views
News: Training in Metagenomics Data Analysis @NIH, USA, Nov 14 - 17, 2017
metagenomics microbiome training
updated 12 months ago by 43k • written 7.5 years ago by ▴ 140
4
votes
0
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2.4k
views
News: Google Genomics and Broad Institute Team Up to Tackle Genomic Data
google broad gatk
updated 16 months ago by 43k • written 8.8 years ago by ★ 5.3k
4
votes
0
replies
2.4k
views
News: 2nd UK Bioinformatics Student Symposium on 7 Oct '15 at TGAC, Norwich
symposium
updated 18 months ago by 43k • written 8.7 years ago by ▴ 100
0
votes
1
reply
2.4k
views
News: Nature Index: Novogene is teaming up with laboratories worldwide for life sciences and human health research
NGS Nature Sequencing
updated 16 months ago by 43k • written 2.1 years ago by ▴ 420
0
votes
0
replies
2.4k
views
News: DEADLINE 18th of March: 2nd Annual Training Course on Viral Bioinformatics and Genomics
virus genomics virology
updated 21 months ago by 43k • written 8.3 years ago by ★ 3.0k
10
votes
7
replies
2.3k
views
News: Free draft copy of book on bioinformatics tools
alignment Assembly RNA-seq next-gen
updated 15 months ago by 43k • written 8.9 years ago by ★ 1.1k
8
votes
2
replies
2.3k
views
News: The bioinformatics chat is a new podcast about bioinformatics. In the first episode we discuss Scallop, a transcriptome assembler
podcast Assembly RNA-Seq
updated 11 months ago by 43k • written 7.0 years ago by ▴ 120
0
votes
3
replies
2.3k
views
News: Eukaryotic Metabarcoding workshop
next-gen blast alignment
updated 12 months ago by 43k • written 7.4 years ago by ★ 2.5k
0
votes
1
reply
2.3k
views
News: Webinar on Unique Molecular Identifier (UMI)-powered Ultra-sensitive Variant Calling using Strand NGS - Case Study
Strand-NGS NGS RNA-Seq UMI dna-seq
updated 11 months ago by 43k • written 6.5 years ago by ▴ 70
1
vote
0
replies
2.3k
views
News: APPLICATION DEADLINE IS DECEMBER 5 for Penn State Applied Bioinformatics Program – 100% Online
education courses online
updated 13 months ago by 43k • written 9.4 years ago by ▴ 10
3
votes
0
replies
2.3k
views
News: Programming for Evolutionary Biology course, Nov 24 - Dec 12 2014, Bogota, Colombia
Perl R Linux
updated 2.4 years ago by 43k • written 9.7 years ago by ★ 3.7k
0
votes
9
replies
2.3k
views
News: Practical Genomics: From Biology to Biostatistics Workshop (Baltimore, MD)
workshop
updated 13 months ago by 43k • written 9.8 years ago by 10k
4
votes
1
reply
2.3k
views
News: ENCODE Users' Meeting
encode ucsc conference functional-genomics ensembl
updated 20 months ago by 43k • written 8.9 years ago by 23k
7
votes
2
replies
2.3k
views
News: Annotation of Zebrafish pri-miRNAs promoters and CAGE-seq detected active Drosha processing events.
Drosha-processing moRNAs pri-miRNAs zebrafish
updated 21 months ago by 43k • written 8.3 years ago by ★ 2.4k
2
votes
0
replies
2.3k
views
News: Course on "Genomic data visualisation and manipulation using Python"
genome next-gen RNA-Seq
updated 11 months ago by 43k • written 6.6 years ago by ▴ 60
3
votes
3
replies
2.3k
views
News: Innocentive Challenge: Identify Organisms From A Stream Of Dna Sequences And Get $1,000,000
ngs
updated 14 months ago by 43k • written 11.0 years ago by ▴ 830
1
vote
0
replies
2.3k
views
News: Multivariate analysis of ecological communities in R with the VEGAN package (VGNR01)
R
updated 11 months ago by 43k • written 6.1 years ago by ▴ 60
0
votes
0
replies
2.3k
views
News: Coursera Bioinformatics Specialization will start in August 31 2015
Coursera
updated 18 months ago by 43k • written 8.7 years ago by ★ 2.2k
3
votes
1
reply
2.3k
views
News: NCBI : New API Keys for the E-utilities
pubmed eutils ncbi api
updated 11 months ago by 43k • written 6.5 years ago by 161k
0
votes
0
replies
2.3k
views
News: Want to learn more about data visualization with Python? Read our interview to Dr. Martin Jones.
genome next-gen-sequencing
updated 12 months ago by 43k • written 7.3 years ago by ★ 2.5k
0
votes
0
replies
2.3k
views
News: Workshop on Computational Approaches for Cancer, Supercomputer 2015 meeting in Austin, TX
meeting supercomputer cancer
updated 19 months ago by 43k • written 8.7 years ago by 26k
5
votes
1
reply
2.3k
views
News: New version of the GATB library
minia next-gen gatb dsk
updated 2.2 years ago by 43k • written 9.2 years ago by ▴ 730
0
votes
0
replies
2.3k
views
News: Fully funded PhD studentships in Quantitative Biology, Universite de Lausanne, Lausanne, Switzerland
snp R genome RNA-Seq
updated 11 months ago by 43k • written 5.5 years ago by • 0
1
vote
0
replies
2.3k
views
News: The power and promise of Genome-Wide Association Studies
Meta-analysis NGS GWAS Linux R
updated 11 months ago by 43k • written 6.8 years ago by ★ 2.5k
6
votes
0
replies
2.3k
views
News: Bioinformatics internships with Google Summer of Code 2019
intern Ensembl GSOC
updated 11 months ago by 43k • written 5.2 years ago by 23k
6
votes
2
replies
2.3k
views
News: Galaxy-specific Biostar Instance
galaxy biostars
updated 14 months ago by 43k • written 10.0 years ago by ▴ 380
0
votes
0
replies
2.3k
views
News: Genomics Summer School- 6 weeks NGS Data Analysis Program
Data-Analysis Exome DNA-Seq RNA-Seq
updated 11 months ago by 43k • written 7.0 years ago by • 0
0
votes
0
replies
2.3k
views
News: Second Annual International Environmental Omics conference to be held in Liverpool, UK. September 15th-18th
Conference
updated 13 months ago by 43k • written 9.8 years ago by ★ 4.0k
3
votes
5
replies
2.3k
views
News: (18 August - "Enzyme Stability Prediction") A free webinar on on-going CAFA5 (Critical Assessment of Functional Annotation of proteins) challenge
gene-ontology CAFA protein
8 months ago by Alexander ▴ 220
3
votes
5
replies
2.3k
views
News: Published: GeneSCF: a real-time based functional enrichment tool with support for multiple organisms
kegg gene-enrichment cancer gene-ontology
updated 12 months ago by 43k • written 7.6 years ago by 7.5k
38
votes
7
replies
2.3k
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
9 months ago by David Langenberger 11k
2
votes
0
replies
2.3k
views
News: Advanced Transcriptomics (RNASeq) Analysis @ NIH, USA, October 31-November 3, 2017
ngs next-gen RNA-Seq training
updated 12 months ago by 43k • written 7.5 years ago by ▴ 140
1,000 results • Page 5 of 20
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Comment: clustalo - align milions of short seq, memory issue
Comment: downloading genomes in fasta format from accession ids
Comment: PCA plot (Suggestions Needed)
Answer: PCA plot (Suggestions Needed)
PCA plot (Suggestions Needed)
Comment: To get p-values for the TPM
A: Where To Download Pam50 Gene Set?
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Recent Replies
Answer: clustalo - align milions of short seq, memory issue by emmanouil.a ▴ 120
Hi GenoMax and Mensur Dlakic, thank you for your feedback. I'm changing approach in the way to work with a smaller number of seq.
Comment: Annovar using R package by Pierre Lindenbaum 161k
duplicate of your previous question: https://www.biostars.org/p/9592646/ why using R when there are shell-based tools like VEP ? slivar , …
Comment: Trouble with Pilon installation by Lissa Cruz Saavedra • 0
Hi I am trying to install the software but I didn't find the way to clone from github. Could you help me with the pipeline of instruction…
Comment: Adding CB tag to bam file by swbarnes2 14k
I think both these programs are just adding the same tag to every line. I don't think either cares whether it's called RG or CB
Comment: PCA plot (Suggestions Needed) by swbarnes2 14k
Even if this was real data, the tiny numbers for the PC1 and PC2 indicate that the differences between the samples are all absolutely tiny.…
Comment: Creating Synthetic Sequences for a ML Model by biochugs • 0
Thanks for the input. I'll continue to think of more ideas that may be achievable.
Comment: PCA plot (Suggestions Needed) by Jeremy ▴ 890
You could also try kernel PCA, which is a non-linear form of PCA, although this will be more time-consuming.
Comment: Troubleshooting RNA-seq data with DNA contamination by DKA ▴ 40
I have unstranded RNA-seq data. Please share the tool with me, if you do not mind.
Comment: PCA plot (Suggestions Needed) by Mensur Dlakic ★ 27k
Everything that @f1f58aed said, plus that there may be no data manipulation that will give you the clusters you expected. Sometimes there a…
Answer: Creating Synthetic Sequences for a ML Model by Mensur Dlakic ★ 27k
It is a good idea, though I don't see how it would work in practice. I think you will encounter at least one additional problem on top of …
Answer: PCA plot (Suggestions Needed) by Jeremy ▴ 890
Right now, the WT samples are clustering together, but you have one mutant sample off by itself, which could be an outlier. How did you sc…
Comment: Adding CB tag to bam file by GenoMax 141k
@yokofakun had written this: https://www.biostars.org/p/336965/ https://github.com/ruqianl/appendCB may also be useful.
Comment: Troubleshooting RNA-seq data with DNA contamination by GenoMax 141k
Please post information about your tool as a `tools` category post. Don't wait/ask other users to ask you.
Comment: Adding CB tag to bam file by Maria • 0
Sorry for the delay in my answer, I got sidetracked. I am using ```samtools addreplacerg -r "@RG\tID:$cell" -o $cell.bam -h $LINE``` bu…
Answer: Troubleshooting RNA-seq data with DNA contamination by haibol2017 ▴ 10
We just developed a R package to tackle this problem. Do you have stranded or unstranded RNA-seq data contaminated with gDNA? If you wou…
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