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News: NCBI ClinVar XML update to accomodate somatic variants
SNP NCBI XML ClinVar
11 weeks ago by PeterC_NCBI ▴ 370
0
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0
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207
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News: Workshop on Virtual Screening on Drug Discovery from scratch (15-16 September, 2023 : 07.00 - 09.00 PM IST)
workshop virtual-screening
updated 7 weeks ago by 41k • written 11 weeks ago by • 0
0
votes
0
replies
227
views
News: RNAseq data analysis with R/Bioconductor
R RNA-seq Bioconductor
updated 8 weeks ago by 41k • written 11 weeks ago by ★ 2.4k
0
votes
0
replies
247
views
News: Course - RNAseq in non-model organisms
R Differential-Expression-Analysis RNA-seq Bioconductor
updated 8 weeks ago by 41k • written 11 weeks ago by ★ 2.4k
4
votes
2
replies
397
views
News: Standalone NCBI ClusteredNR database now available for download
ClusteredNR NCBI standalone BLAST
12 weeks ago by PeterC_NCBI ▴ 370
0
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0
replies
239
views
News: Virtual Variant Detection Workshop: September 11-14, 2023
tutorial detection genomics workshop variant
12 weeks ago by mia.nahom ▴ 10
0
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0
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231
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News: Introduction to Deep Learning for Biologists course
Python Deep-Learning Machine-Learning
updated 12 weeks ago by 41k • written 12 weeks ago by ★ 2.4k
0
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0
replies
225
views
News: Course - Reproducibility Data Analysis with R
R renv Version-Control Reproducibility
updated 8 weeks ago by 41k • written 12 weeks ago by ★ 2.4k
0
votes
0
replies
311
views
News: Online course: Easily analyze single cell RNA-seq data with Cellenics®, a user-friendly web-based platform
scRNA-seq training single-cell-RNA-seq
updated 3 months ago by 41k • written 3 months ago by • 0
0
votes
0
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365
views
News: Join Our Online Course: Incorporating Paleogenomes into Evolutionary Genomics Studies
Paleogenomics Genomics aDNA Adaptation-Genomics
updated 3 months ago by 41k • written 3 months ago by ★ 2.4k
0
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0
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235
views
News: Course on Phylogenomics
Phylogenetic-Inference Divergence-Time-Estimation Genomics Phylogenomics
updated 3 months ago by 41k • written 3 months ago by ★ 2.4k
0
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0
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267
views
News: Course. -Multivariate Data Analysis with R and vegan
R vegan MultivariateDataAnalysis
3 months ago by carlopecoraro2 ★ 2.4k
3
votes
2
replies
487
views
News: NCBI BLAST+ 2.14.1 Now Available
NCBI BLAST
3 months ago by PeterC_NCBI ▴ 370
1
vote
0
replies
217
views
News: Course - Introduction to CRISPR
CRISPR Evolution GenomeEditing
3 months ago by carlopecoraro2 ★ 2.4k
0
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0
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229
views
News: Upcoming Learning Opportunities and Important Updates
R Programming aDNA Paleogenomics
3 months ago by carlopecoraro2 ★ 2.4k
3
votes
5
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2.0k
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
3 months ago by Alexander ▴ 200
0
votes
0
replies
272
views
News: Spatial Omics course
Spatial-Omics Multiplexed-Image-Analysis
updated 8 weeks ago by 41k • written 3 months ago by ★ 2.4k
1
vote
0
replies
346
views
News: Generalized Additive Models in R
R GAMs Courses
3 months ago by carlopecoraro2 ★ 2.4k
0
votes
0
replies
235
views
News: NIAID Data Ecosystem Discovery Portal
databases data opendata api
3 months ago by ehaag ▴ 20
0
votes
0
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306
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News: Course - Structural Variant detection and comparison
SVs Structural-Variants
updated 3 months ago by 41k • written 3 months ago by ★ 2.4k
0
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0
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276
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News: course -Developing R/Bioconductor Packages for Genomics
R Genomics Bioconductor
updated 3 months ago by 41k • written 3 months ago by ★ 2.4k
4
votes
3
replies
788
views
News: You may need to cleanup duplicate NCBI BLAST nt database volumes on your system
databases NCBI BLAST
3 months ago by PeterC_NCBI ▴ 370
0
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0
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301
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News: Course - Data Visualization in R with ggplot2
R Data-Visualization ggplot2
updated 4 months ago by 41k • written 4 months ago by ★ 2.4k
38
votes
7
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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
9
votes
4
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2.3k
views
7 follow
News: fastp 0.22 released, with new FASTQ deduplication feature.
fastp
updated 4 months ago by 41k • written 2.3 years ago by ★ 2.5k
0
votes
0
replies
354
views
News: Course - RADseq data analysis with Stacks
RADseq Phylogenomics Stacks Population-genomics
updated 3 months ago by 41k • written 4 months ago by ★ 2.4k
0
votes
0
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307
views
News: course - DNA METHYLATION IN ECOLOGY AND EVOLUTION
Non-Model-Organisms DNA-Methylation BS-seq
updated 3 months ago by 41k • written 4 months ago by ★ 2.4k
2
votes
0
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420
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News: Registration open for Nextflow Summit 2023, and free online Nextflow / nf-core training
nextflow
4 months ago by Marcel Ribeiro-Dantas ▴ 450
0
votes
0
replies
317
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News: 2-day Course on Introduction to Nextflow
Workflow Reproducibility Nextflow
updated 4 months ago by 41k • written 4 months ago by ★ 2.4k
0
votes
0
replies
287
views
News: Physalia courses in September
Genomics R Data-Science
updated 4 months ago by 41k • written 4 months ago by ★ 2.4k
0
votes
0
replies
342
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News: Cellosaurus release 46
knowledgebase cell-line cellosaurus
5 months ago by Amos Bairoch ▴ 110
0
votes
0
replies
261
views
News: Course - Data Manipulation and Visualization in Python
Data-Manipulation Data-Visualisation Python
updated 5 months ago by 41k • written 5 months ago by ★ 2.4k
0
votes
0
replies
404
views
News: Kindle edition of book NO LONGER available. Book available for free
Computational-Biology
5 months ago by sinha.shriprakash ▴ 20
0
votes
0
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364
views
News: Course on Generalised Linear Mixed Models in R
GLMM R Statistics Mixed-Models
updated 5 months ago by 41k • written 5 months ago by ★ 2.4k
0
votes
0
replies
362
views
News: Course - Network Analysis in Systems Biology with R/Bioconductor
R Systems-Biology Network-Analysis Bioconductor
updated 3 months ago by 41k • written 5 months ago by ★ 2.4k
0
votes
0
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268
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News: course on Reproducibility data analysis with R
R Reproducibility Git Github
5 months ago by carlopecoraro2 ★ 2.4k
38
votes
8
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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
4
votes
0
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465
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News: A Practical Introduction to Single-Cell RNA-Seq Data Analysis (November 8-10, 2023 in Berlin, Germany)
NGS RNA-Seq single-cell workshop
5 months ago by David Langenberger 10k
0
votes
0
replies
533
views
News: Hands-On NGS Data Analysis Courses 2023
RNA-seq DNA-seq Workshop
updated 5 months ago by 41k • written 5 months ago by 10k
1
vote
0
replies
343
views
News: Course - Introduction to Deep Learning for biologists
Genomics Deep-Learning Python NGS
updated 5 months ago by 41k • written 5 months ago by ★ 2.4k
1
vote
0
replies
349
views
News: Good bioinformatics training resources
NGS
updated 5 months ago by 158k • written 5 months ago by ▴ 80
0
votes
0
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414
views
News: Generalized Linear Models (GLM) course in R
R GLM statistics
6 months ago by carlopecoraro2 ★ 2.4k
0
votes
0
replies
387
views
News: course - Advanced Python programming
Python Deep-Learning Machine-Learning
updated 3 months ago by 41k • written 6 months ago by ★ 2.4k
3
votes
2
replies
575
views
News: Participate in a NCBI/NIAID Virtual Codeathon: VCF Files for Population Genomics, Jul 31 - Aug 4, 2023
VCF SARS-CoV-2 NCBI Codeathon
6 months ago by PeterC_NCBI ▴ 370
0
votes
0
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300
views
News: Virtual Genome Annotation Workshop
annotation genome workshop
6 months ago by mia.nahom ▴ 10
0
votes
0
replies
523
views
News: Course - Longitudinal data analysis in R
Longitudinal-Data R Genomics
updated 6 months ago by 41k • written 6 months ago by ★ 2.4k
0
votes
0
replies
309
views
News: New version of ElasticBLAST (1.1.0) available from NCBI
ElasticBLAST BLAST. NCBI
6 months ago by PeterC_NCBI ▴ 370
0
votes
0
replies
294
views
News: Course - Introduction to CRISPR for Ecology and Evolution Studies
Genomics CRISPR
6 months ago by carlopecoraro2 ★ 2.4k
0
votes
0
replies
1.2k
views
News: GWAS course
GWAS R
updated 6 months ago by 41k • written 6 months ago by ★ 2.4k
0
votes
0
replies
391
views
News: Course - RNAseq data analysis with R/Bioconductor
R Tidyverse RNA-seq Bioconductor
updated 3 months ago by 41k • written 6 months ago by ★ 2.4k
1,000 results • Page 2 of 20
Recent Votes
Comment: Problematic fastq files...How can we trust them?
Answer: GO categorization
Comment: Using metagenome assembly and binning to identify and mitigate contamination in
Answer: How to obtain data on the coordinates of the Exon region from UCSC
Answer: How to obtain data on the coordinates of the Exon region from UCSC
Answer: How to obtain data on the coordinates of the Exon region from UCSC
Answer: An incomprehensible error with R package gggenes
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Popular Question to beausoleilmo ▴ 560
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Answer: Are 10x cellranger-arc ATAC bam files deduplicated? by swbarnes2 13k
My experience with regular 10x bam files is that duplicates are not removed, but they are flagged as duplicates. So take a look at the …
Comment: Can I use TCGA-LUAD RNAseq count that had already normalized by RSEM in Limma-vo by fluke • 0
Thanks a lot for your answer, I’m confused between RSEM expected count and RSEM normalized count. I’m working on this dataset from UCSC ht…
Answer: From TPM to raw counts by Istvan Albert 99k
In principle, the TPM formula can be reverted, see the timeless post * [What the FPKM? A review of RNA-Seq expression units][1] In p…
Answer: Low coverage whole genome sequencing reveal excess heterozygosity for multiple S by beausoleilmo ▴ 560
You're right, I wasn't explaining the problem clearly. Thanks for the directions! - The depth; coverage ~3.00X ± 2.50 SD - The sequen…
Comment: Using metagenome assembly and binning to identify and mitigate contamination in by Mensur Dlakic ★ 25k
All good points, especially about multiple copies of single-copy genes. I am doing error-correction in my assemblies, but was making an edu…
Comment: Can I use TCGA-LUAD RNAseq count that had already normalized by RSEM in Limma-vo by CTLong ▴ 20
Yes, normalized RSEM counts from TCGA can be used as input for Limma Voom. Please check this post https://support.bioconductor.org/p/63981/…
Comment: How to obtain data on the coordinates of the Exon region from UCSC by ayasu • 0
Sorry for the delay in expressing my thanks. I found the advice to look at the information from MySQL very useful. I will also refer to t…
Comment: From TPM to raw counts by Brian Bushnell 19k
I'm posting this as a comment instead of an answer specifically because it's just what I would do and I don't know if it's the best approac…
Comment: Using metagenome assembly and binning to identify and mitigate contamination in by Brian Bushnell 19k
In most cases error-correction should take care of error-spawned fake minor alleles, though... > If you want to convince yourself of this,…
Answer: Using metagenome assembly and binning to identify and mitigate contamination in by Mensur Dlakic ★ 25k
It is a valid question, and I particularly like when posters err on the side of providing more than less detail. Metagenomic binning can be…
Answer: Low coverage whole genome sequencing reveal excess heterozygosity for multiple S by Brian Bushnell 19k
I don't understand your plot. Perhaps a legend would help? I also don't know what you mean by "genotype frequency"; is that the ratio of …
Comment: Does GNOMAD use all LOFTEE LoF filters? by AMARU • 0
Can you post the commands you used? I am having some issues running that plugin on vep v110. It appears in fields but it doesn't annotat…
Comment: "MethylKit" package for WGBS data by viveksomya123 • 0
Why I am getting this histogram of CpG coverage using methylkit, is this the failure of bisulfite library preparation![enter image descript…
Comment: Should I scale all genes in single cell Seurat? by synat.keam ▴ 80
Thanks, António for your kind and detailed responses. You helped clear my doubt about scaling! Kind Regards, Synat
Comment: Using metagenome assembly and binning to identify and mitigate contamination in by Brian Bushnell 19k
It's not a silly question! And yes, it can be done. JGI is currently testing various binning tools to try to find the best protocol for t…
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