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News: Genome Assembly and Annotation course
Annotation Nanopore GenomeAssembly Pacbio
6 months ago by carlopecoraro2 ★ 2.3k
3
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0
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1.0k
views
News: Changes to the default NCBI BLAST nucleotide database (nt). Learn more and provide feedback!
NCBI Databases BLAST
6 months ago by PeterC_NCBI ▴ 260
0
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0
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271
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News: Nextflow online training
Nextflow Workflow Reproducibility
updated 6 months ago by 39k • written 6 months ago by ★ 2.3k
0
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2
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1.0k
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News: :: FINAL CALL :: Next-Generation Sequencing Data Analysis: A Practical Introduction (December 12-14, 2022 in Munich, Germany)
rnaseq dnaseq sequencing ngs workshop
6 months ago by David Langenberger 9.9k
0
votes
0
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306
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News: The Association for Single Cell Analysis (ASCA)
genomics singlecell metabolomics sequencing proteomics
6 months ago by dnsv.ev • 0
0
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0
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266
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News: Deep Learning in Population Genomics and Phylogeography
DeepLearning Phylogeography PopulationGenomics
6 months ago by carlopecoraro2 ★ 2.3k
0
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0
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296
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News: Metabarcoding in Microbial Ecology Workshop
Qiime2 R Metabarcoding Microbial-Ecology
7 months ago by carlopecoraro2 ★ 2.3k
1
vote
2
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416
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News: Gene Set Enrichment Analysis in R/Bioconductor
Gene-Set-Enrichment-Analysis R Cancer-Genomics GSEA
7 months ago by carlopecoraro2 ★ 2.3k
0
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0
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271
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News: Analysis of RNA sequencing data with R/Bioconductor course.
Bioconductor RNAseq R
7 months ago by carlopecoraro2 ★ 2.3k
0
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0
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387
views
News: Winter School in Bioinformatics
course workshop
updated 6 months ago by 39k • written 7 months ago by ★ 2.3k
1
vote
0
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347
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News: Introduction to Nextflow
Nextflow
updated 6 months ago by 39k • written 7 months ago by ★ 2.3k
0
votes
2
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505
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News: Seascape Genomics in R
Genomics Seascape R
updated 6 months ago by 39k • written 7 months ago by ★ 2.3k
0
votes
0
replies
260
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News: Bioinformatics courses in November
Bioconductor Genomics R
updated 6 months ago by 39k • written 7 months ago by ★ 2.3k
0
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0
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479
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News: Flow cytometry analysis with R/Bioconductor course
Bioconductor R Cytometry Flow
7 months ago by carlopecoraro2 ★ 2.3k
0
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0
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264
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News: course: RNA-seq analyses in non-model organisms
differential Bioconductor RNAseq expression non-model organisms analysis R
7 months ago by carlopecoraro2 ★ 2.3k
0
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0
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281
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News: course - Developing R/Bioconductor packages for genomics
developing package Bioconductor Genomics R
8 months ago by carlopecoraro2 ★ 2.3k
2
votes
0
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303
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News: Four NCBI workshops in October (BLAST, Primer-BLAST, Metagenome analysis, Structures in iCn3D)
metagenomics MagicBLAST BLAST NCBI Primer-BLAST
8 months ago by PeterC_NCBI ▴ 260
0
votes
0
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398
views
News: course - Unix and shell scripting for bioinformatics
bash Shell-scripting Unix
updated 6 months ago by 39k • written 8 months ago by ★ 2.3k
0
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0
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308
views
News: course: Data Visualization in Python
Visualisation Python Data
updated 8 months ago by 129k • written 8 months ago by ★ 2.3k
0
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0
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288
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News: Seascape Genomics in R course
Genomics R Seascape Population
8 months ago by carlopecoraro2 ★ 2.3k
0
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0
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321
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News: Cellosaurus API
line cell API
8 months ago by Amos Bairoch ▴ 110
0
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0
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300
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News: Cellosaurus release 43 is available
cellosaurus cell-line
updated 5 months ago by 39k • written 8 months ago by ▴ 110
0
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0
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256
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News: Genomics Webinar: Using Mastermind’s New ClinVar Integration to Accelerate Clinical Diagnoses
variant-interpretation genomics database webinar
updated 6 months ago by 39k • written 8 months ago by • 0
0
votes
0
replies
238
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News: course: Population Genomic Inference from Low-coverage Whole-genome Sequencing Data
whole-genome genomics population low-coverage sequencing
updated 8 months ago by 21k • written 8 months ago by ★ 2.3k
0
votes
0
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240
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News: :: FINAL CALL :: RNA-Seq Data Analysis Workshop (October 25 - 28, 2022 in Leipzig, Germany) - 2 seats left
RNA-Seq workshop transcriptomics
8 months ago by David Langenberger 9.9k
0
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0
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225
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News: Getting the most out of R course - last call
ggplot2 R tidyverse
8 months ago by carlopecoraro2 ★ 2.3k
0
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0
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307
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News: The NCTR Indel Calling from Oncopanel Sequencing Data Challenge Winners have been announced!
FDA-challenge
updated 6 months ago by 39k • written 8 months ago by ▴ 10
1
vote
0
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281
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News: Webinar (free) on Multimodal Single-Cell Data from winner of NeurIPS 2021
ATAC-seq CITE-seq scRNA-seq
8 months ago by Alexander ▴ 70
1
vote
0
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277
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News: course Reproducible Analysis With R
R Reproducibility analysis Data
8 months ago by carlopecoraro2 ★ 2.3k
0
votes
0
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298
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News: Virtual Genome Assembly workshop
Genome Workshop assembly Virtual
9 months ago by singh.vijender ▴ 70
10
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4
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683
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News: Good morning
good morning
updated 9 months ago by 98k • written 9 months ago by 85k
6
votes
7
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3.1k
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News: New in DiffBind: dba.plotProfile() - Peak profiles and profile heatmaps
DiffBind ChIP-seq deepTools visualization ATAC-seq
9 months ago by Rory Stark ★ 1.7k
0
votes
0
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322
views
News: Sex Chromosome Evolution course
course Genomics
updated 6 months ago by 39k • written 9 months ago by ★ 2.3k
0
votes
0
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269
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News: Online training - Data visualization in R with ggplot2
Visualization ggplot2 R Data
9 months ago by carlopecoraro2 ★ 2.3k
1
vote
0
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341
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News: Searching for people who can share experience (give free webinars/discuss) on multimodal single cell data
ATAC-seq CITE-seq scRNA-seq
9 months ago by Alexander ▴ 70
0
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0
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290
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News: Online training - Introduction to Deep Learning for biologists
Python DeepLearning bigdata MachineLearning
9 months ago by carlopecoraro2 ★ 2.3k
0
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0
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447
views
News: 2023 EMBL Courses and Conferences
EMBL EMBLMalaria EESImaging
9 months ago by EMBL Events • 0
0
votes
0
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301
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News: Online training -Getting the most out of R
R Science analysis Data
10 months ago by carlopecoraro2 ★ 2.3k
0
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0
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312
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News: Online training - Cancer Genomics in R
Cancer Genomics R
updated 6 months ago by 39k • written 10 months ago by ★ 2.3k
0
votes
0
replies
290
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News: Online training - DNA methylation in plants and animals
OxfordNanopore DNAMethylation BSseq longreads PacBio
10 months ago by carlopecoraro2 ★ 2.3k
0
votes
0
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311
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News: 3rd edition of the Analysis of RNA sequencing data with R/Bioconductor course.
RNAseq Bioconductor R
10 months ago by carlopecoraro2 ★ 2.3k
4
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1
reply
2.1k
views
News: 2014 ISCB Wikipedia Article Competition announcement
ISCB competition Wikipedia
written 8.8 years ago by ★ 2.0k
1
vote
2
replies
614
views
News: Online training - Introduction to Nextflow
Bionfirmatics Pipeline Workflow Netflow
10 months ago by carlopecoraro2 ★ 2.3k
4
votes
1
reply
426
views
News: Online Course - A Practical Introduction to NGS Data Analysis (September 26-28, 2022)
workshop ngs data-analysis
updated 10 months ago by 39k • written 11 months ago by 9.9k
0
votes
0
replies
392
views
News: Final Call! Tomorrow (7/8) is the Deadline for Phase 1 submissions of the NCTR Indel Calling from Oncopanel Sequencing Data Challenge!
oncopanel indel-calling
updated 5 months ago by 39k • written 11 months ago by ▴ 10
0
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0
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343
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News: Automate your NGS data analyses and create reproducible/scalable pipelines with NextFlow
pipeline Nextflow automation
11 months ago by David Langenberger 9.9k
0
votes
1
reply
760
views
News: Hands-On RNA-Seq Data Analysis Workshop in Leipzig, Germany (October 25-28, 2022)
RNA-Seq Transcriptomics NGS Workshop
11 months ago by David Langenberger 9.9k
0
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3
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1.0k
views
News: Less Than One Month Remaining until the Submission Deadline for Phase 1 of the NCTR Indel Calling from Oncopanel Sequencing Data Challenge!
oncopanel indel-calling
updated 5 months ago by 39k • written 11 months ago by ▴ 10
0
votes
0
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307
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News: EBI Competency Hub Supporting competency-based training and professional development.
ebi carreer
11 months ago by Pierre Lindenbaum 154k
0
votes
0
replies
305
views
News: Introduction to Statistics in R for biologists
tydeverse R Statistics
11 months ago by carlopecoraro2 ★ 2.3k
1,000 results • Page 3 of 20
Recent Votes
C: Regarding filter primary alignment
Alternative approach to rarefying in 16S rRNA analysis
Answer: Gene prediction software
Comment: retaining only the clusters of interest
Comment: retaining only the clusters of interest
Calculating read abundances across MAGs (question)
Comment: Contigs to chromosomes annotation
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Comment: Correct way to remove Nextera adapters from ITS sequences by mattze731 ▴ 10
Trimmomatic allows to enter custom adapter sequences, but I don't see how this would change the outcome. Similarly, trimmomatic also allows…
Comment: phage genome submission in ncbi genebank by acvill ▴ 290
When running prokka, did you call the `--compliant` parameter to enforce Genbank compliance? https://github.com/tseemann/prokka#ncbi-genban…
Comment: Correct way to remove Nextera adapters from ITS sequences by Trivas ★ 1.2k
Some of these programs have a minimum size threshold for a read to be retained. You could play around with that to keep all trimmed reads 5…
Comment: retaining only the clusters of interest by seidel 11k
Could it be that idents needs a character string instead of integers? Also, you have an extra comma in your call after c(0:16).
Comment: retaining only the clusters of interest by Ram 39k
`idents` is probably a factor so even though you've removed cells with those level values, the factor level still remains. Don't worry abou…
Comment: Contigs to chromosomes annotation by GenoMax 129k
I would still recommend using `minimap2` and aligning against reference. It should go pretty fast. You can either work with PAF (default) f…
Comment: Diff Bind Questions by Ram 39k
I've moved this to a comment as it does not directly answer OP's question.
Comment: Diff Bind Questions by Daniel ▴ 30
I'm very new myself and there's plenty of people who can answer your question better than I can, but here is a resource I found extremely h…
Comment: Contigs to chromosomes annotation by alexandru.bologa.marian ▴ 50
If the number of contigs was so small I would manually check each alignment and edit the header of each contig,inserting the corresponding …
Comment: Gviz Coverage Plots by Ram 39k
Do not post on multiple fora just because you want a fast response, it's plain rude. At least point to the other post so we know you're ask…
Comment: Limma returned only positive logFC values by melissachua90 ▴ 40
No the library sizes across conditions should be relatively homogenous because it's from the same dataset. I clustered the samples into sub…
Comment: Limma returned only positive logFC values by LChart 2.6k
It shouldn't, unless there's a misspecification in design. Is it the case that the library sizes are very different between the conditions …
Comment: Contigs to chromosomes annotation by Darked89 4.4k
For a pure contig to Dmel chromosome BLAST should be OK. I am fan of LAST because it is fairly easy to convert MAF to SAM/BAM and then vi…
Comment: Contigs to chromosomes annotation by GenoMax 129k
How many contigs do you have? If the contigs are ~2x number of Drosophila chromosomes (meaning you have long/large contigs) then using a lo…
Comment: Contigs to chromosomes annotation by alexandru.bologa.marian ▴ 50
Thank you for your answer! It would be wrong just to BLAST all the contigs from the draft assembly against each reference chromosome of D.…
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