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News: The Biostar Handbook. A bioinformatics e-book for beginners.
training handbook
updated 6 weeks ago by 2.0k • written 6.8 years ago by 98k
0
votes
0
replies
93
views
News: New NCBI Datasets APIs to Replace Old Ones
NCBI API Datasets
1 day ago by PeterC_NCBI ▴ 330
0
votes
1
reply
229
views
News: LAST CALL: Online Course - A Practical Introduction to NGS Data Analysis - October 23-25, 2023
DNA-seq Workshop RNA-seq
1 day ago by David Langenberger 10k
0
votes
0
replies
106
views
News: RADseq data analysis course
RADseq Phylogenomics Bioinformatics Populationgenomics Stacks
3 days ago by carlopecoraro2 ★ 2.3k
0
votes
1
reply
181
views
News: EMBL-EBI virtual course | Introduction to RNA-seq and functional interpretation
RNA-seq
updated 4 days ago by 40k • written 4 days ago by • 0
1
vote
0
replies
163
views
News: Online Training - Bioinformatics Pipeline Development with Nextflow (November 15-17, 2023)
nextflow automation pipeline development
5 days ago by David Langenberger 10k
2
votes
1
reply
215
views
News: Successful NCBI NIAID Codeathon on VCF Files in SARS-CoV-2 Genomics
NCBI Codeathon
updated 2 days ago by 10k • written 5 days ago by ▴ 330
0
votes
0
replies
160
views
News: Workshop - Single-Cell RNA-Seq Data Analysis: A Practical Introduction (November 8-10, 2023 in Berlin)
workshop scRNA-Seq RNA-Seq single-cell
updated 5 days ago by 40k • written 6 days ago by 10k
0
votes
0
replies
155
views
News: Research Breakthrough in Identifying Viral Escape Mutations for Improved Therapeutic Design
sequence-analysis sars-cov-2 spike-protein
updated 5 days ago by 40k • written 6 days ago by • 0
0
votes
0
replies
134
views
News: Course: Data Manipulation and Visualisation with Python
Python Data-Visualization Data-Manipulation
updated 7 days ago by 40k • written 7 days ago by ★ 2.3k
0
votes
2
replies
570
views
News: The Practice of RADseq: Population Genomics Analysis with Stacks (RADS02) Early bird deadline approaching - 20th September
population-genomics radseq stacks
updated 7 days ago by ★ 1.4k • written 8 days ago by ▴ 110
0
votes
0
replies
137
views
News: Course - GLMMs in R
GLMM Mixed-Models
updated 8 days ago by 40k • written 8 days ago by ★ 2.3k
0
votes
0
replies
138
views
News: Introduction to Nextflow (2 seats left)
Nextflow Workflow Reproducibility
updated 8 days ago by 40k • written 8 days ago by ★ 2.3k
0
votes
0
replies
137
views
News: Genomic Prediction course
Bioinformatics GWAS GenomicPrediction
9 days ago by carlopecoraro2 ★ 2.3k
0
votes
0
replies
121
views
News: course - Population Genomics Using Ancient DNA Data
Bioinformatics PopulationGenomics Genomics aDNA
9 days ago by carlopecoraro2 ★ 2.3k
3
votes
5
replies
860
views
News: Ensembl Release 104 and newer GTF files no longer have genes sorted by position
Ensembl GTF
updated 14 days ago by ▴ 30 • written 10 months ago by ▴ 30
0
votes
0
replies
136
views
News: NCBI ClinVar XML update to accomodate somatic variants
SNP NCBI XML ClinVar
14 days ago by PeterC_NCBI ▴ 330
0
votes
0
replies
110
views
News: Workshop on Virtual Screening on Drug Discovery from scratch (15-16 September, 2023 : 07.00 - 09.00 PM IST)
bioinformatics screening virtual
updated 14 days ago by 134k • written 14 days ago by • 0
0
votes
0
replies
119
views
News: RNAseq data analysis with R/Bioconductor
R RNAseq Bioconductor
15 days ago by carlopecoraro2 ★ 2.3k
0
votes
0
replies
145
views
News: Course - RNAseq in non-model organisms
R RNAseq DifferentialExpressionAnalysis Bioconductor
17 days ago by carlopecoraro2 ★ 2.3k
4
votes
2
replies
257
views
News: Standalone NCBI ClusteredNR database now available for download
ClusteredNR NCBI standalone BLAST
21 days ago by PeterC_NCBI ▴ 330
0
votes
0
replies
130
views
News: Virtual Variant Detection Workshop: September 11-14, 2023
tutorial detection genomics workshop variant
21 days ago by mia.nahom ▴ 10
0
votes
0
replies
144
views
News: Introduction to Deep Learning for Biologists course
Python Deep-Learning Machine-Learning
updated 21 days ago by 40k • written 22 days ago by ★ 2.3k
0
votes
0
replies
129
views
News: Course - Reproducibility Data Analysis with R
R renv VersionControl Reproducibility
22 days ago by carlopecoraro2 ★ 2.3k
0
votes
0
replies
198
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 25 days ago by 40k • written 26 days ago by • 0
0
votes
0
replies
252
views
News: Join Our Online Course: Incorporating Paleogenomes into Evolutionary Genomics Studies
Paleogenomics Genomics aDNA Adaptation-Genomics
updated 26 days ago by 40k • written 26 days ago by ★ 2.3k
0
votes
0
replies
132
views
News: Course on Phylogenomics
Phylogenetic-Inference Divergence-Time-Estimation Genomics Phylogenomics
updated 26 days ago by 40k • written 27 days ago by ★ 2.3k
0
votes
0
replies
168
views
News: Course. -Multivariate Data Analysis with R and vegan
R vegan MultivariateDataAnalysis
4 weeks ago by carlopecoraro2 ★ 2.3k
2
votes
2
replies
323
views
News: NCBI BLAST+ 2.14.1 Now Available
NCBI BLAST
4 weeks ago by PeterC_NCBI ▴ 330
1
vote
0
replies
145
views
News: Course - Introduction to CRISPR
CRISPR Evolution GenomeEditing
5 weeks ago by carlopecoraro2 ★ 2.3k
0
votes
0
replies
162
views
News: Upcoming Learning Opportunities and Important Updates
R Programming aDNA Paleogenomics
5 weeks ago by carlopecoraro2 ★ 2.3k
3
votes
5
replies
1.7k
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
5 weeks ago by Alexander ▴ 200
0
votes
0
replies
183
views
News: Spatial Omics course
MultiplexedImageAnalysis SpatialOmics
6 weeks ago by carlopecoraro2 ★ 2.3k
1
vote
0
replies
267
views
News: Generalized Additive Models in R
R GAMs Courses
6 weeks ago by carlopecoraro2 ★ 2.3k
0
votes
0
replies
164
views
News: NIAID Data Ecosystem Discovery Portal
databases data opendata api
7 weeks ago by ehaag ▴ 20
0
votes
0
replies
188
views
News: Course - Structural Variant detection and comparison
SVs Structural-Variants
updated 7 weeks ago by 40k • written 7 weeks ago by ★ 2.3k
0
votes
0
replies
205
views
News: course -Developing R/Bioconductor Packages for Genomics
R Genomics Bioconductor
updated 7 weeks ago by 40k • written 7 weeks ago by ★ 2.3k
4
votes
3
replies
635
views
News: You may need to cleanup duplicate NCBI BLAST nt database volumes on your system
databases NCBI BLAST
4 weeks ago by PeterC_NCBI ▴ 330
0
votes
0
replies
230
views
News: Course - Data Visualization in R with ggplot2
R Data-Visualization ggplot2
updated 8 weeks ago by 40k • written 8 weeks ago by ★ 2.3k
38
votes
7
replies
1.6k
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
8 weeks ago by David Langenberger 10k
9
votes
4
replies
2.1k
views
7 follow
News: fastp 0.22 released, with new FASTQ deduplication feature.
fastp
updated 8 weeks ago by 40k • written 2.1 years ago by ★ 2.4k
0
votes
0
replies
273
views
News: Course - RADseq data analysis with Stacks
RADseq Phylogenomics Stacks Population-genomics
updated 7 weeks ago by 40k • written 9 weeks ago by ★ 2.3k
0
votes
0
replies
225
views
News: course - DNA METHYLATION IN ECOLOGY AND EVOLUTION
Non-Model-Organisms DNA-Methylation BS-seq
updated 7 weeks ago by 40k • written 10 weeks ago by ★ 2.3k
2
votes
0
replies
325
views
News: Registration open for Nextflow Summit 2023, and free online Nextflow / nf-core training
nextflow
11 weeks ago by Marcel Ribeiro-Dantas ▴ 440
0
votes
0
replies
247
views
News: 2-day Course on Introduction to Nextflow
Workflow Reproducibility Nextflow
updated 11 weeks ago by 40k • written 11 weeks ago by ★ 2.3k
0
votes
0
replies
207
views
News: Physalia courses in September
Genomics R Data-Science
updated 11 weeks ago by 40k • written 11 weeks ago by ★ 2.3k
0
votes
0
replies
277
views
News: Cellosaurus release 46
knowledgebase cell-line cellosaurus
12 weeks ago by Amos Bairoch ▴ 110
0
votes
0
replies
200
views
News: Course - Data Manipulation and Visualization in Python
Data-Manipulation Data-Visualisation Python
updated 3 months ago by 40k • written 3 months ago by ★ 2.3k
0
votes
0
replies
350
views
News: Kindle edition of book NO LONGER available. Book available for free
Computational-Biology
3 months ago by sinha.shriprakash ▴ 20
0
votes
0
replies
283
views
News: Course on Generalised Linear Mixed Models in R
GLMM R Statistics Mixed-Models
updated 3 months ago by 40k • written 3 months ago by ★ 2.3k
1,000 results • Page 1 of 20
Recent Votes
Comment: ncbi error report log for validate fastq issue
GEO data mining (IB) - Downloading Sequence Read Archive (SRA) raw data
Answer: Fetch Fastq files directly for SRA data
Answer: Running Rockhopper from a command-line
Comment: Hisat2 index and alignment question
Comment: How the first sequencing template removed in pair end sequencing
Comment: Which function is best for pathway analysis?
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Recent Replies
Comment: Help writing code for a question on my homework by Joe 21k
This isn't really the right place for this question. Please ask this as a separate new question, but only if it is bioinformatics related.
Comment: How to determine the total count for each gene in lymphotype B by dalibenam64 • 0
thank you very much for your response I'm really grateful !! but I'm still confused because for example for patients I have 2 replicates…
Comment: Sequence quality drops in the 3' end of the left sequence in paired end. What co by eggrandio ▴ 40
But shouldn't quality drop at both 3'ends and not just on the left one?
Answer: Sequence quality drops in the 3' end of the left sequence in paired end. What co by ATpoint 77k
That's normal and known: https://www.biostars.org/p/91624/
Comment: to annotate BEDPE files by Lhl ▴ 760
is this what you are looking for? https://github.com/imgag/ngs-bits/blob/master/doc/tools/BedpeGeneAnnotation.md
Comment: ncbi error report log for validate fastq issue by 1769mkc ★ 1.1k
" you're forced to use it" this is sort of since I have use docker image and then pass the GSM id as list of input first to check if the th…
Comment: ncbi error report log for validate fastq issue by ATpoint 77k
I don't think this log is helpful. Can't you just get fastq download links via sra-explorer.info or the tool mentioned by @rob in his answe…
Comment: GO ENRICHMENT ANALYSIS- DESEQ by Basti ★ 1.7k
You need to show an example of your list
Comment: How the first sequencing template removed in pair end sequencing by rfran010 ▴ 810
Great! It looks like USER enzyme is used to cleave before the first read sequencing and formamidopyrimidine DNA N-glycosylase is used to cl…
Comment: module and trait correlation for WGCNA by andres.firrincieli 3.4k
Hi, First of all, you should never use DEGs for WGCNA. See @kevinblighe answer: [link][1]. > However, when it comes to module-trait analy…
Comment: identify DEGs across all conditions and per specific conditions by luffy ▴ 50
@camillab, Please look into Kevin Blighe's response in this [post][1] hope that helps. [1]: https://www.biostars.org/p/357464/
Answer: Running Rockhopper from a command-line by langziv ▴ 50
I managed to resolve the issue by passing absolute paths instead of relative ones.
Comment: Which function is best for pathway analysis? by luffy ▴ 50
@chris Please look into @Hamid Ghaedi's well documented [post][1] on ORA and GSEA, Or [this][2] documentation. Hope this helps. [1]: ht…
Comment: Bacterial Pangenome Analysis by kirankumareripogu ▴ 10
Hi @liorglic, Thank you for your prompt response. I totally agree with you that different blastp cuttoffs provide different results and…
Answer: Fetch Fastq files directly for SRA data by Rob 6.2k
What is the accession for the project? Many — though not all — of the projects present in the NCBI SRA are also hosted in the European Nuc…
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