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News: The Biostar Handbook. A bioinformatics e-book for beginners.
training handbook
updated 3 months ago by 2.8k • written 7.5 years ago by 100k
0
votes
0
replies
51
views
News: Online course- Advanced Python for Life Sciences
Python MachineLearning Programming DataVisualisation
9 hours ago by carlopecoraro2 ★ 2.5k
0
votes
0
replies
71
views
News: Online course: Network analysis in Systems Biology with R/Bioconductor
Bioconductor Systems-Biology Network-Analysis R
updated 20 hours ago by 44k • written 1 day ago by ★ 2.5k
1
vote
2
replies
222
views
News: ICGEB - SLIBTEC NGS Workshop: Won Best Oral Presentation Award
BestTalk PlatformPresentation offtopic
updated 8 hours ago by 6.4k • written 1 day ago by • 0
1
vote
0
replies
169
views
News: Course on Manual Genome Curation
Genome-Assembly Pretext-View Manual-Genome-Curation
updated 4 days ago by 44k • written 5 days ago by ★ 2.5k
0
votes
0
replies
89
views
News: New course: Manipulation of NGS Data for Genomic and Population Genetics Analyses
KeepLearning TScourses
6 days ago by Transmitting Science communication ▴ 70
0
votes
2
replies
444
views
News: FINAL CALL: 8th Berlin Summer School in NGS Data Analysis - Only a few last places available
DNA-seq variant-calling RNA-seq illumina transcriptomics
7 days ago by David Langenberger 11k
0
votes
0
replies
130
views
News: Online course: An Introduction to Nanopore Direct RNA Sequencing
Nanopore RNAseq
9 days ago by carlopecoraro2 ★ 2.5k
2
votes
0
replies
165
views
News: course on Landscape Genomics at the EPFL in Lausanne (June 17-21)
LandscapeGenomics SNPs LocalAdaptation GIS
11 days ago by carlopecoraro2 ★ 2.5k
0
votes
0
replies
135
views
News: Online course: Introduction to Deep Learning
Python Deep-Learning Convolutional-Neural-Network Machine-Learning
updated 12 days ago by 44k • written 13 days ago by ★ 2.5k
0
votes
0
replies
126
views
News: Online course. -Time series analysis and Forecasting in R
Time-Series Forecasting R Stastics
14 days ago by carlopecoraro2 ★ 2.5k
1
vote
2
replies
301
views
News: We created a Bioinformatics Competition for Spatial Transcriptomics: MICOS-EU
cell-clustering Spatial-transcriptomics
updated 14 days ago by • 0 • written 15 days ago by ▴ 10
0
votes
0
replies
129
views
News: Online course: Bioinformatic analysis of transposable elements
GenomeAssembly Transcriptomics TransposableElements ManualCuration
16 days ago by carlopecoraro2 ★ 2.5k
1
vote
2
replies
1.2k
views
News: The GDC Legacy Archive is retiring soon.
genomic-data-commons tcga gdc
16 days ago by Zhenyu Zhang ★ 1.2k
0
votes
0
replies
151
views
News: Cellosaurus release 49 is available
cell biocuration line database news knowledgebase
18 days ago by Amos Bairoch ▴ 120
0
votes
0
replies
129
views
News: Beyond beginner R: Advancing your coding skills - September 16-19
Advanced-Coding Programming R
updated 19 days ago by 44k • written 19 days ago by ★ 2.5k
0
votes
0
replies
189
views
News: Goodbye, Slow Code? How BioNumpy can Redefine Python’s Role in Bioinformatics!
BioNumPy Python NumPy
updated 21 days ago by 44k • written 21 days ago by • 0
0
votes
0
replies
154
views
News: Online course: Meta-analysis in R - last 2 seats left
Meta-Analysis Statistics R
updated 21 days ago by 44k • written 21 days ago by ★ 2.5k
0
votes
0
replies
140
views
News: Online course: Genome Annotation
Genome-Assembly Genome-Annotation
22 days ago by carlopecoraro2 ★ 2.5k
3
votes
0
replies
245
views
News: Webinar “Learning Single-cell Atlases” with Dr. Fabian Theis, author of Scanpy on May 8
Scanpy Generative-AI scRNA Machine-Learning
updated 24 days ago by 44k • written 25 days ago by ▴ 60
0
votes
0
replies
189
views
News: Master Meta-analysis with R (May 13-16) - Online!
Meta-Analysis Statistics R
updated 25 days ago by 44k • written 25 days ago by ★ 2.5k
0
votes
0
replies
150
views
News: hands-on introduction to generalized linear models (GLMs) using R
Generalized-Linear-Models GLM R
updated 26 days ago by 44k • written 27 days ago by ★ 2.5k
3
votes
0
replies
162
views
News: Interested in Spatial Omics?
Bioconductor Spatial-Omics Spatial-Transcriptomics
updated 28 days ago by 44k • written 28 days ago by ★ 2.5k
0
votes
0
replies
128
views
News: Online course: DNA methylation
Pacbio Nanopore DnaMethylation Evolution
29 days ago by carlopecoraro2 ★ 2.5k
0
votes
0
replies
169
views
News: upcoming online statistical courses
Statistics R Data-Analysis
updated 4 weeks ago by 44k • written 4 weeks ago by ★ 2.5k
0
votes
0
replies
228
views
News: Online course: Meta-analysis in R
Meta-Analysis Statistics R
updated 4 weeks ago by 44k • written 4 weeks ago by ★ 2.5k
0
votes
0
replies
209
views
News: Course - Agent-Based Modelling Using NetLogo - University of Lodz, Poland
Netlogo Individual-Based-Models Agent-Based-Models
updated 4 weeks ago by 44k • written 4 weeks ago by ★ 2.5k
0
votes
0
replies
213
views
News: Final Call - Bioinformatics Pipeline Development with Nextflow (May 27-29, 2024)
workshop RNA-seq nextflow DNA-seq
updated 5 weeks ago by 44k • written 5 weeks ago by 11k
0
votes
0
replies
177
views
News: Deadline Approaching: PETs for Public Health Challenge
privacy public-health-challenge
updated 5 weeks ago by 44k • written 5 weeks ago by ▴ 380
0
votes
0
replies
208
views
News: Online course: Network Analysis in R
NetworkAnalyis R
5 weeks ago by carlopecoraro2 ★ 2.5k
0
votes
0
replies
215
views
News: Online course: Meta-analysis in R
Meta-Analysis R
updated 5 weeks ago by 44k • written 5 weeks ago by ★ 2.5k
1
vote
0
replies
158
views
News: Online Live Course: Introduction to Machine Learning in R
Rstats TScourses Rlang Rproject
updated 5 weeks ago by 44k • written 5 weeks ago by ▴ 70
2
votes
0
replies
154
views
News: Online Course Generalised Additive Mixed Models (GAMM): modelling space-time correlation structures
GAMM Rlang Rstats Rproject
updated 5 weeks ago by 44k • written 5 weeks ago by ▴ 70
2
votes
0
replies
154
views
News: Online Course Introduction to Network Analysis and Modelling
Python Network-Analysis
updated 5 weeks ago by 44k • written 5 weeks ago by ▴ 70
2
votes
0
replies
141
views
News: Course Functional Programming with R
Rstats TScourses Rproject KeepLearning Rlang
5 weeks ago by Transmitting Science communication ▴ 70
12
votes
2
replies
525
views
News: 8th Berlin Summer School in NGS Data Analysis (June 10-14, 2024) - already half booked
Workshop RNA-Seq DNA-Seq Illumina
5 weeks ago by David Langenberger 11k
2
votes
0
replies
152
views
News: Online course: Genome Annotation
Genome-Assembly RNA-seq Genome-Annotation
updated 5 weeks ago by 44k • written 5 weeks ago by ★ 2.5k
0
votes
0
replies
147
views
News: Online course: Multivariate Data Analysis with R and vegan
Multivariate-Statistics vegan R
updated 6 weeks ago by 44k • written 6 weeks ago by ★ 2.5k
1
vote
0
replies
202
views
News: Landscape Genomics course in Switzerland
LFMM Landscape-Genomics Sambada R Local-Adaptation
19 days ago by carlopecoraro2 ★ 2.5k
8
votes
2
replies
856
views
News: FINAL CALL - Single-Cell RNA-Seq Data Analysis: A Practical Introduction (May 6-8, 2024 in Berlin)
single-cell sequencing
6 weeks ago by David Langenberger 11k
0
votes
0
replies
179
views
News: Online course: Food Traceability Using Genomic Tools
Nanopore Genomic-Tools Illumina Food-Traceability
updated 6 weeks ago by 44k • written 6 weeks ago by ★ 2.5k
0
votes
0
replies
173
views
News: Online course: Eukaryotic Metabarcoding
Metabarcoding Biodiversity R eDNA
7 weeks ago by carlopecoraro2 ★ 2.5k
3
votes
2
replies
808
views
News: Announcement: Research Topic "Mechanistic, Machine Learning and Hybrid Models of the 'Other' Endocrine Regulatory Systems in Health and Disease", Vol…
mathematical-modelling endocrinology ML systems-biology machine-learning
7 weeks ago by Johannes W. Dietrich • 0
0
votes
0
replies
232
views
News: Online course: Reproducibility in Bioinformatics
Singularity Version-Control Docker Containers
updated 7 weeks ago by 44k • written 7 weeks ago by ★ 2.5k
0
votes
0
replies
196
views
News: Online course: Analysis of Prokaryotic Pangenomes (Last call)
Prokaryotic Bacterial-Genomics Pangenomics
updated 7 weeks ago by 44k • written 7 weeks ago by ★ 2.5k
0
votes
0
replies
202
views
News: Online course: Introduction to GWAS
GWAS Imputation StatisticalPower
8 weeks ago by carlopecoraro2 ★ 2.5k
0
votes
0
replies
189
views
News: Online course: Adaptation Genomics
StructuralVariants Selection AdaptationGenomics PopulationStructure
9 weeks ago by carlopecoraro2 ★ 2.5k
0
votes
0
replies
181
views
News: Online course: Analysis of Prokaryotic Pangenomes
BacterialGenomics Pangenomics
9 weeks ago by carlopecoraro2 ★ 2.5k
0
votes
0
replies
261
views
News: Online course on Genome Assembly and Annotation (1 seat left)
Galaxy GenomeAssembly GenomeAnnotation
9 weeks ago by carlopecoraro2 ★ 2.5k
1
vote
0
replies
206
views
News: NCBI's ClinVar now accepting somatic variation data
variation NCBI somatic-variants ClinVar
9 weeks ago by PeterC_NCBI ▴ 410
1,000 results • Page 1 of 20
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Answer: converting transcript IDs (Ensembl) to gene symbols in R
Answer: converting transcript IDs (Ensembl) to gene symbols in R
Comment: Trimming tool
Answer: Trimming tool
Comparing ATAC-seq narrowPeak Files from Chicken and Mouse
Comparing ATAC-seq narrowPeak Files from Chicken and Mouse
How Do I Draw A Heatmap In R With Both A Color Key And Multiple Color Side Bars?
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Recent Replies
Comment: Comparing Analysis Strategies for scRNA-seq Data: Separate vs. Merged Analysis o by Shukai • 0
![enter image description here][1] [1]: /media/images/081d73bc-759d-4ea4-8b4c-19a65bfd
Comment: Comparing Analysis Strategies for scRNA-seq Data: Separate vs. Merged Analysis o by Shukai • 0
To give more context on how I generated the explorative UMAP, here are the code I used: # Adding metadata Sample to each Seurat object al…
Answer: Question about samtools view flags (paired reads vs. properly paired reads) by Pierre Lindenbaum 161k
paired reads = the experiment was a paired end assay: each fragment was sequenced on 5' and 3', two FASTQ files are generated by the seque…
Answer: z-score of gene set by Matthias Zepper 4.6k
The z-score is a measure of how many standard deviations a particular data point is from the mean of a distribution. A positive z-score ind…
Answer: converting transcript IDs (Ensembl) to gene symbols in R by bk11 ★ 2.5k
You can do as following: library(biomaRt) # Set up the Ensembl BioMart connection ensembl <- useEnsembl(biomart = "genes",…
Comment: How can we convert a vcf to fasta, so that I can blast some genes against that w by Pierre Lindenbaum 161k
well you try to use FastaAlternateReferenceMaker https://gatk.broadinstitute.org/hc/en-us/articles/360037594571-FastaAlternateReferenceMak…
Comment: z-score of gene set by bk11 ★ 2.5k
Can you please tell us what will be your propose of z-score calculation?
Comment: DRAGEN gVCF files and joint calling GATK-GenomicsDB by DBScan ▴ 300
I think I did it once, but why would you use GATK with DRAGEN gVCF files? If you have a DRAGEN, the iterative gVCF Genotyper does a much fa…
Answer: Practical Haplotype Graph v2 not finding correct paths by beantkapoor16 ▴ 10
So, I just tested it and it's performing much better now. Most of the haplotype paths are coming from the expected haplotypes (australasica…
Comment: Kraken2 Custom Database non-deterministic results by Bjorn • 0
Thank you!
Comment: Generating a Bed file from a Fasta file by Pierre Lindenbaum 161k
there is not enough information. you have to show us the command you used, a snapshot of your fasta...
Comment: Practical Haplotype Graph v2 not finding correct paths by beantkapoor16 ▴ 10
That's great. I will test it and let you know how it goes. Thank you.
Comment: Generating a Bed file from a Fasta file by pirku • 0
I tried running BLAT, but the output looks like this. Seems like none of the sequences were mapped/aligned match mis- rep. N's Q gap…
Comment: Where to find old version of GATK best practice by GenoMax 142k
You could try and look up a snapshot of the page(s) - https://web.archive.org/ Which specific best practice are you referring to? https:/…
Comment: Generating a Bed file from a Fasta file by Pierre Lindenbaum 161k
you could run blast or any other aligner to get the coordinate(s) of your fasta on a reference genome.
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