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News: March 13-16: Virtual Nextflow and nf-core training event in 5 languages
nf-core pipeline Nextflow
updated 10 weeks ago by ▴ 230 • written 3 months ago by 3.7k
0
votes
1
reply
204
views
News: Courses in March. -still a few seats available
Bioconductor Genomics R
updated 3 months ago by 39k • written 3 months ago by ★ 2.3k
0
votes
0
replies
219
views
News: course - Next steps in applied Bayesian regression modeling
Statistics RegressionModeling Bayesian R
3 months ago by carlopecoraro2 ★ 2.3k
0
votes
0
replies
288
views
News: Introduction to GWAS course in June
GWAS R
updated 12 weeks ago by 39k • written 3 months ago by ★ 2.3k
0
votes
0
replies
365
views
News: Introduction to GWAS course (6th edition) - June, 5th-8th
GWAS R
updated 3 months ago by 39k • written 3 months ago by ★ 2.3k
0
votes
0
replies
193
views
News: Course - Version Control for Researchers
VersionControl GIT Github
3 months ago by carlopecoraro2 ★ 2.3k
0
votes
0
replies
340
views
News: Course - INTRODUCTION TO PYTHON PROGRAMMING FOR BIOLOGISTS
Programming Python
updated 3 months ago by 39k • written 3 months ago by ★ 2.3k
0
votes
0
replies
237
views
News: Eukaryotic Metabarcoding course
eDNA Metabarcoding
updated 4 months ago by 39k • written 4 months ago by ★ 2.3k
0
votes
3
replies
421
views
News: NCBI update complete. Aspera users please update your client.
NCBI Submissions GenBank
3 months ago by PeterC_NCBI ▴ 260
0
votes
0
replies
223
views
News: Course - Mass Spectrometry and Proteomics in R/Bioconductor
Bioconductor MassSpectrometry R Proteomics
4 months ago by carlopecoraro2 ★ 2.3k
0
votes
0
replies
382
views
News: Course - Machine Learning in R (for omics data)
Genomics omics MachineLearning R
4 months ago by carlopecoraro2 ★ 2.3k
2
votes
0
replies
256
views
News: Course - Reproducibility in Bioinformatics
Reproducibility
updated 4 months ago by 39k • written 4 months ago by ★ 2.3k
0
votes
0
replies
209
views
News: course - Multivariate data analysis with R and vegan
Statistics MultivariateAnalysis R vegan
4 months ago by carlopecoraro2 ★ 2.3k
0
votes
2
replies
761
views
News: Online Course - A Practical Introduction to NGS Data Analysis (February 01-03, 2023)
NGS DNAseq variant-calling RNAseq
4 months ago by David Langenberger 9.9k
0
votes
0
replies
280
views
News: Bioinformatics courses in February
Genomics BioinformaticsTraining
4 months ago by carlopecoraro2 ★ 2.3k
0
votes
0
replies
784
views
News: Reminder: NCBI Aspera access, update Aspera Connect by Feb 1, 2023
Aspera NCBI SRA GenBank
4 months ago by PeterC_NCBI ▴ 260
1
vote
2
replies
449
views
News: Course: Network Analysis in R
NetworkAnalyis R
4 months ago by carlopecoraro2 ★ 2.3k
0
votes
0
replies
280
views
News: de novo RNA-seq Analysis Workshop
virtual workshop rna transcriptome
4 months ago by mia.nahom ▴ 10
0
votes
0
replies
376
views
News: Genomic Prediction course
Selective-Breeding Genomic-Prediction
updated 4 months ago by 39k • written 4 months ago by ★ 2.3k
1
vote
0
replies
435
views
News: course: Meta-analysis in R
Statistics MetaAnalysis R
4 months ago by carlopecoraro2 ★ 2.3k
0
votes
0
replies
358
views
News: GSEA in R/Bioconductor course
Bioconductor R GSEA GeneSetEnrichmentAnalysis
4 months ago by carlopecoraro2 ★ 2.3k
0
votes
0
replies
675
views
News: For NCBI Aspera access, update Aspera Connect by Feb 1, 2023
Aspera NCBI GenBank
4 months ago by PeterC_NCBI ▴ 260
0
votes
0
replies
305
views
News: Metabarcoding in Microbial Ecology
Metabarcoding Qiime2 16S MicrobialEcology R
4 months ago by carlopecoraro2 ★ 2.3k
0
votes
0
replies
277
views
News: Metagenomics tools recommeder system
NGS Metagenomics Recommender-system
updated 4 months ago by 39k • written 4 months ago by • 0
0
votes
0
replies
481
views
News: Hands-On NGS Data Analysis Workshops 2023
NGS Workshop RNA-Seq DNA-Seq
4 months ago by David Langenberger 9.9k
1
vote
5
replies
758
views
News: Cancer Genomics course - 2 seats left
Genomics Cancer-Genomics R
updated 4 months ago by 39k • written 4 months ago by ★ 2.3k
0
votes
0
replies
272
views
News: Course on Generalised Additive Models In R
Statistics GAMs R
4 months ago by carlopecoraro2 ★ 2.3k
0
votes
1
reply
444
views
News: Sex Chromosome Evolution course
Genomics Sex-Chromosome-Evolution
updated 4 months ago by 39k • written 4 months ago by ★ 2.3k
1
vote
2
replies
744
views
News: New chat server (Discord) for bioinformatics
community
4 months ago by Samuel Lampa ★ 1.3k
0
votes
0
replies
382
views
News: Online course - Genome Assembly and Annotation
Long-reads Genome-Annotation Biodiversity Genome-Assembly
updated 4 months ago by 39k • written 4 months ago by ★ 2.3k
1
vote
3
replies
569
views
News: NCBI BLAST ClusteredNR database now available for blastx and PSI-BLAST searches
PSI-BLAST blastx BLAST NCBI ClusteredNR
4 months ago by PeterC_NCBI ▴ 260
1
vote
0
replies
1.0k
views
News: New ebook: From cell line to Command line to learn computational biology
snakemake biology unix RNAseq computational
5 months ago by Ming Tommy Tang ★ 2.9k
0
votes
0
replies
406
views
News: Winter School in Bioinformatics - last seats available
Genomics Unix RNA-seq docker
updated 4 months ago by 39k • written 5 months ago by ★ 2.3k
0
votes
0
replies
285
views
News: Virtual RNA-seq Analysis (Model Organism) Workshop
virtual expression rna-seq analysis workshop
5 months ago by mia.nahom ▴ 10
0
votes
0
replies
328
views
News: Introduction to R Shiny course
WebApplications R RShiny
5 months ago by carlopecoraro2 ★ 2.3k
1
vote
0
replies
361
views
News: New version of ElasticBLAST (1.0.0) available.
NCBI ElasticBLAST BLAST
5 months ago by PeterC_NCBI ▴ 260
0
votes
1
reply
351
views
News: Courses in January - still a few seats available
R-Shiny Genomics Unix R
updated 4 months ago by 39k • written 5 months ago by ★ 2.3k
0
votes
0
replies
239
views
News: Sex Chromosome Evolution course
Genomics Sex-Chromosome-Evolution
updated 5 months ago by 39k • written 5 months ago by ★ 2.3k
0
votes
0
replies
289
views
News: Cellosaurus release 44 is available
cellosaurus cell-line
updated 5 months ago by 39k • written 5 months ago by ▴ 110
0
votes
0
replies
265
views
News: Introductory video to the Cellosaurus
cellosaurus cell-line
updated 5 months ago by 39k • written 5 months ago by ▴ 110
0
votes
3
replies
662
views
News: Nvidia Clara Parabricks is FREE for R&D
nvidia workflow gpu
updated 5 months ago by 2.7k • written 5 months ago by 154k
2
votes
3
replies
412
views
News: NCBI Comparative Genome Viewer now allows searches for genes across aligned assemblies
Browser NCBI Alignments Genome
5 months ago by PeterC_NCBI ▴ 260
1
vote
6
replies
799
views
News: Course - FLOW CYTOMETRY ANALYSIS WITH R/BIOCONDUCTOR
Bioconductor FlowCytometry R
updated 4 months ago by ▴ 70 • written 5 months ago by ★ 2.3k
0
votes
0
replies
226
views
News: INTRODUCTION TO ANALYTICAL PALEOBIOLOGY: FOSSIL RECORD BIASES, DIVERSITY, & BIOGEOGRAPHY
Biogeography Paleobiology R
5 months ago by carlopecoraro2 ★ 2.3k
1
vote
0
replies
241
views
News: Analysis of Cancer Genomes Using R and Bioinformatic Tools
Genomics Cancer-Genomics R
updated 5 months ago by 39k • written 5 months ago by ★ 2.3k
0
votes
0
replies
381
views
News: course - GENOME ASSEMBLY USING OXFORD NANOPORE SEQUENCING
Long-reads Assembly Nanopore Genome
5 months ago by carlopecoraro2 ★ 2.3k
0
votes
0
replies
223
views
News: Online training - VERSION CONTROL FOR RESEARCHERS
Version Control Git Github
6 months ago by carlopecoraro2 ★ 2.3k
0
votes
1
reply
290
views
News: Research Training In NGS Data Analysis
analysis data-analysis
updated 6 months ago by 39k • written 6 months ago by • 0
0
votes
0
replies
328
views
News: Bayesian regression modeling in R course
RegressionModeling Bayesian R
6 months ago by carlopecoraro2 ★ 2.3k
0
votes
4
replies
559
views
News: Ensembl Release 104 and newer GTF files no longer have genes sorted by position
Ensembl GTF
updated 5 months ago by ★ 2.2k • written 6 months ago by ▴ 10
1,000 results • Page 2 of 20
Recent Votes
Comment: Help with running ATAC using Encode pipeline
Answer: I have one fasta file of a bacteria. Can i use to create a phylogenetic tree?
Comment: RNASeq gene labeling and mRNA filter from bulkRNA data.
[Meta] Use of AI
Answer: Network cross-validation
Answer: Random dataset and DESeq2
A: Single end or paired end for variant calling
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Recent Replies
Answer: Is a human genome file with reference as NCBI37 the same as hg19? by GenoMax 129k
If you go to the GRCh37 page at NCBI you will see that `hg19` is a synonym (mostly used by UCSC as I recall): https://www.ncbi.nlm.nih.gov/…
Comment: Help with running ATAC using Encode pipeline by Chris ▴ 100
So do we have redundant in this case when we specify the path to fastq.gz files in both input file and json file? json file is .json, how a…
Comment: Is a human genome file with reference as NCBI37 the same as hg19? by a5864557 • 0
Note: I've also asked this [here][1] [1]: https://bioinformatics.stackexchange.com/questions/21101/is-a-human-genome-file-with-referenc…
Answer: [Meta] Use of AI by GenoMax 129k
As you indicate, AI in some form or other is here to stay and we can't avoid it in our lives and on biostars. Main issue I see is the vali…
Answer: RNASeq gene labeling and mRNA filter from bulkRNA data. by rfran010 ▴ 110
featureCounts can extract this information and output a column for you during counting, presuming you input a GTF file. `extraAttributes …
Comment: What are recommended parameters for the local protein alignment ? by Alexander ▴ 70
Trying to do so ))
Comment: Help with running ATAC using Encode pipeline by rfran010 ▴ 110
The "Input files" section is details on how you can specify your fastqs in the JSON. (You specify all pipeline parameters in the JSON.) Ess…
Comment: What are recommended parameters for the local protein alignment ? by Vincent Laufer ★ 2.9k
does this mean you understand pident now and are moving forward?
Answer: Random dataset and DESeq2 by Vincent Laufer ★ 2.9k
@e38da452 Not only is this not surprising, it is the basis for an entire class of statistical techniques referred to as permutation bas…
Comment: (ERR): "index/Trinity.fa" does not exist or is not a Bowtie 2 index Exiting now by GenoMax 129k
> This generated multiple Trinity.fa files in the index folder Did the process complete successfully?
Comment: Random dataset and DESeq2 by LChart 2.6k
I don't think you've given enough detail about your approach (what's the data? are you correcting for covariates? how did you shuffle? how …
Answer: Network cross-validation by LChart 2.6k
What do you mean by "robust" in this case? Which of the following is closest to what you want to estimate: (1) Would I get a similar res…
Comment: I have one fasta file of a bacteria. Can i use to create a phylogenetic tree? by Mustafa • 0
Thank you so much ! will try them all !
Answer: I have one fasta file of a bacteria. Can i use to create a phylogenetic tree? by andres.firrincieli 3.3k
If the fasta file contains the genome sequence you can use the following: 1. GToTree (see example [here][1]) 2. [GTDB-tk][2] *de novo…
Comment: Low mapping percentage by Sib ▴ 40
Thank you for the reply @genomax . If there is not much I can do about the contamination at this stage, what is the benefit of knowing the…
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