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News: Interested in Spatial Omics?
Bioconductor Spatial-Omics Spatial-Transcriptomics
updated 3 minutes ago by 43k • written 31 minutes ago by ★ 2.5k
795
votes
167
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141k
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109 follow
News: The Biostar Handbook. A bioinformatics e-book for beginners.
training handbook
updated 3 months ago by 2.7k • written 7.4 years ago by 100k
0
votes
0
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74
views
News: Online course: DNA methylation
Pacbio Nanopore DnaMethylation Evolution
1 day ago by carlopecoraro2 ★ 2.5k
0
votes
0
replies
123
views
News: upcoming online statistical courses
Statistics R Data-Analysis
updated 2 days ago by 43k • written 2 days ago by ★ 2.5k
0
votes
0
replies
183
views
News: Online course: Meta-analysis in R
Meta-Analysis Statistics R
updated 5 days ago by 43k • written 5 days ago by ★ 2.5k
0
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0
replies
168
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News: Course - Agent-Based Modelling Using NetLogo - University of Lodz, Poland
Netlogo Individual-Based-Models Agent-Based-Models
updated 5 days ago by 43k • written 5 days ago by ★ 2.5k
0
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0
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167
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News: Final Call - Bioinformatics Pipeline Development with Nextflow (May 27-29, 2024)
workshop RNA-seq nextflow DNA-seq
updated 6 days ago by 43k • written 7 days ago by 11k
0
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0
replies
137
views
News: Deadline Approaching: PETs for Public Health Challenge
privacy public-health-challenge
updated 7 days ago by 43k • written 8 days ago by ▴ 380
0
votes
0
replies
171
views
News: Online course: Network Analysis in R
NetworkAnalyis R
9 days ago by carlopecoraro2 ★ 2.5k
0
votes
0
replies
176
views
News: Online course: Meta-analysis in R
Meta-Analysis R
updated 11 days ago by 43k • written 11 days ago by ★ 2.5k
1
vote
0
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123
views
News: Online Live Course: Introduction to Machine Learning in R
Rstats TScourses Rlang Rproject
updated 12 days ago by 43k • written 12 days ago by ▴ 70
2
votes
0
replies
115
views
News: Online Course Generalised Additive Mixed Models (GAMM): modelling space-time correlation structures
GAMM Rlang Rstats Rproject
updated 12 days ago by 43k • written 12 days ago by ▴ 70
2
votes
0
replies
114
views
News: Online Course Introduction to Network Analysis and Modelling
Python Network-Analysis
updated 12 days ago by 43k • written 12 days ago by ▴ 70
2
votes
0
replies
106
views
News: Course Functional Programming with R
Rstats TScourses Rproject KeepLearning Rlang
13 days ago by Transmitting Science communication ▴ 70
12
votes
2
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435
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News: 8th Berlin Summer School in NGS Data Analysis (June 10-14, 2024) - already half booked
Workshop RNA-Seq DNA-Seq Illumina
13 days ago by David Langenberger 11k
2
votes
0
replies
111
views
News: Online course: Genome Annotation
Genome-Assembly RNA-seq Genome-Annotation
updated 13 days ago by 43k • written 13 days ago by ★ 2.5k
0
votes
0
replies
113
views
News: Online course: Multivariate Data Analysis with R and vegan
Multivariate-Statistics vegan R
updated 14 days ago by 43k • written 15 days ago by ★ 2.5k
1
vote
0
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167
views
News: Landscape Genomics course in Switzerland
LFMM Landscape-Genomics Sambada R Local-Adaptation
updated 14 days ago by 43k • written 17 days ago by ★ 2.5k
8
votes
2
replies
761
views
News: FINAL CALL - Single-Cell RNA-Seq Data Analysis: A Practical Introduction (May 6-8, 2024 in Berlin)
single-cell sequencing
18 days ago by David Langenberger 11k
0
votes
0
replies
137
views
News: Online course: Food Traceability Using Genomic Tools
Nanopore Genomic-Tools Illumina Food-Traceability
updated 19 days ago by 43k • written 20 days ago by ★ 2.5k
0
votes
0
replies
141
views
News: Online course: Eukaryotic Metabarcoding
Metabarcoding Biodiversity R eDNA
21 days ago by carlopecoraro2 ★ 2.5k
3
votes
2
replies
550
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
24 days ago by Johannes W. Dietrich • 0
0
votes
0
replies
195
views
News: Online course: Reproducibility in Bioinformatics
Singularity Version-Control Docker Containers
updated 25 days ago by 43k • written 25 days ago by ★ 2.5k
0
votes
0
replies
159
views
News: Online course: Analysis of Prokaryotic Pangenomes (Last call)
Prokaryotic Bacterial-Genomics Pangenomics
updated 25 days ago by 43k • written 25 days ago by ★ 2.5k
0
votes
0
replies
159
views
News: Online course: Introduction to GWAS
GWAS Imputation StatisticalPower
4 weeks ago by carlopecoraro2 ★ 2.5k
0
votes
0
replies
157
views
News: Online course: Adaptation Genomics
StructuralVariants Selection AdaptationGenomics PopulationStructure
5 weeks ago by carlopecoraro2 ★ 2.5k
0
votes
0
replies
147
views
News: Online course: Analysis of Prokaryotic Pangenomes
BacterialGenomics Pangenomics
5 weeks ago by carlopecoraro2 ★ 2.5k
0
votes
0
replies
226
views
News: Online course on Genome Assembly and Annotation (1 seat left)
Galaxy GenomeAssembly GenomeAnnotation
5 weeks ago by carlopecoraro2 ★ 2.5k
1
vote
0
replies
164
views
News: NCBI's ClinVar now accepting somatic variation data
variation NCBI somatic-variants ClinVar
5 weeks ago by PeterC_NCBI ▴ 410
1
vote
1
reply
267
views
News: EMBL Course Hands-on course for sample preparation and data analysis in proteomics
EMBLProteomics
updated 5 weeks ago by • 0 • written 10 weeks ago by ▴ 10
1
vote
0
replies
186
views
News: Learn how to create robust bioinformatics pipelines for reproducible and comparable NGS analyses
nextflow pipeline workshop
6 weeks ago by David Langenberger 11k
0
votes
0
replies
149
views
News: Online course: Genome Assembly and Annotation - 3 seats left
Genome-Assembly Galaxy Genome-Annotation
updated 6 weeks ago by 43k • written 6 weeks ago by ★ 2.5k
0
votes
0
replies
145
views
News: Call for abstract: Quest for Orthologs meeting in Montreal
conference phylogeny comparativegenomics orthology evolution
6 weeks ago by sina.majidian ▴ 20
1
vote
0
replies
149
views
News: shournal: A Tool for Bioinformaticians to Boost Research Reproducibility
reproducability terminal bash
7 weeks ago by David Langenberger 11k
1
vote
1
reply
187
views
News: Integrated Genome Browser (IGB) Office Hours
Integrated-Genome-Browser IGB
updated 7 weeks ago by 43k • written 7 weeks ago by • 0
0
votes
0
replies
179
views
News: Online course: Network Analysis in Systems Biology with R/Bioconductor
R RNA-seq Network-Analysis Bioconductor Systems-Biology
updated 7 weeks ago by 43k • written 7 weeks ago by ★ 2.5k
0
votes
0
replies
208
views
News: The 2024 Canadian Bioinformatics Workshops are here!
CBW workshop training
7 weeks ago by bioinformatics.ca • 0
0
votes
0
replies
169
views
News: Live online course Data Manipulation with R Tidyverse, 3 and 5 of April
R manipulation tidyverse data
8 weeks ago by Sole • 0
0
votes
0
replies
189
views
News: Online course: Reproducibility in Bioinformatics
Docker Singularity WorkflowManagementSystems Reproducibility
8 weeks ago by carlopecoraro2 ★ 2.5k
0
votes
0
replies
241
views
News: Online course: Genome Assembly Using Oxford Nanopore Sequencing - 4 seats remaining
GenomeAssembly Nanopore longreads
8 weeks ago by carlopecoraro2 ★ 2.5k
0
votes
0
replies
222
views
News: Webinar about scRNA-seq cell type prediction
scRNAseq
updated 8 weeks ago by 141k • written 8 weeks ago by • 0
0
votes
0
replies
233
views
News: Online course: Spatial Omics in R/Bioconductor
R Spatial-Omics Bioconductor tidyverse transcriptomics
updated 8 weeks ago by 43k • written 8 weeks ago by ★ 2.5k
0
votes
0
replies
199
views
News: Online course: Model-Based Demographic Inference from Population Genomics
Demographic-Inference Population-Genomics Demographic-Models
updated 9 weeks ago by 43k • written 9 weeks ago by ★ 2.5k
0
votes
0
replies
168
views
News: Online course: R/Bioconductor for Mass Spectrometry and Proteomics
R Proteomics Bioconductor Mass-Spectrometry
updated 9 weeks ago by 43k • written 9 weeks ago by ★ 2.5k
0
votes
0
replies
179
views
News: Virtual Workshops with the UConn Computational Biology Core
Workshop genomics
updated 9 weeks ago by 141k • written 9 weeks ago by ▴ 10
0
votes
0
replies
172
views
News: NGS Data Analysis Courses for Absolute Beginners
NGS DNAseq RNAseq singlecellsequencing DataAnalysis
10 weeks ago by David Langenberger 11k
0
votes
0
replies
188
views
News: Online course: Genome Assembly and Annotation
Annotation Genome-Assembly Nanopore Pacbio
updated 10 weeks ago by 43k • written 10 weeks ago by ★ 2.5k
0
votes
0
replies
168
views
News: Online course: Computation Tumor Evolution
R Cancer-Genomics Tumor-Evolution Genomics
updated 10 weeks ago by 43k • written 10 weeks ago by ★ 2.5k
0
votes
0
replies
165
views
News: Course live online Intro Bayesian Analyses, March 4-8, 2024
R python bayesian
10 weeks ago by Sole • 0
0
votes
1
reply
933
views
News: FINAL CALL: RNA-Seq Data Analysis Workshop (March 11 - 14, 2024 in Berlin, Germany)
NGS RNA-Seq Workshop
11 weeks ago by David Langenberger 11k
1,000 results • Page 1 of 20
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Comment: Failed kmer content
Using vg gamsort with naive sorting algorithm
Answer: Using vg gamsort with naive sorting algorithm
Interested in Spatial Omics?
Interested in Spatial Omics?
Comment: Downsampling fastq file
Answer: Running blastp with BLAST+ 2.15.0 against custom database; need to identify hits
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Recent Replies
Comment: Redirection of Duplicate PMIDs by LauferVA 4.2k
Ok! I have a recommendation. I'll submit it as an answer, pending your feedback. vincent
Comment: DYH17 Structure Prediction by anasjamshed ▴ 120
In modeller we need to use templates as well.
Comment: DYH17 Structure Prediction by Ram 43k
Mensur said > The latter option assumes you know how to use Modeller Do you know how to use Modeller? I vaguely recall there being a mini…
Comment: Should I remove unlocalized scaffols in reference genome before alignment? by GenoMax 141k
OP is working with long reads so the chances of reads aligning to unlocalized scaffolds are relatively small. Doing some testing may be suf…
Comment: What is the real meaning of relative enrichment/peak height of ChIP-seq tracks? by ATpoint 81k
I personally think that comparing the same peak between conditions is meaningful and comparing peaks within the same sample is not.
Comment: Should I remove unlocalized scaffols in reference genome before alignment? by ATpoint 81k
These regions are present in the genome and removing them might incorrectly redirect alignments to known genes. I don't see why you would r…
Comment: Should I remove unlocalized scaffols in reference genome before alignment? by njornet ▴ 20
Ok thank you! Do you know if there is an easy way of doing so with ncbi-genome-download or I need to use another tool?
Comment: Using vg gamsort with naive sorting algorithm by Pierre Lindenbaum 161k
> Don't forget to follow up on your threads. If an answer was helpful, you should upvote it; if the answer resolved your question, you shou…
Comment: Redirection of Duplicate PMIDs by dominickd • 0
The scope is all publications related to grants from an NIH award program. There are currently ~120k publications in total (about a few hun…
Answer: Using vg gamsort with naive sorting algorithm by anovak ▴ 120
The `-d` sorting mode does the entire sort in memory, so it will only work if you have enough memory to load your whole GAM file. To fin…
Comment: Redirection of Duplicate PMIDs by dominickd • 0
I have a list of PMIDs for publications linked to a list of grants, exported from NIH RePORTER.
Comment: Plot DNA methylation level of DMR on the basis of certain genes by Pierre Lindenbaum 161k
> Don't forget to follow up on your threads. If an answer was helpful, you should upvote it; if the answer resolved your question, you shou…
Comment: Should I remove unlocalized scaffols in reference genome before alignment? by GenoMax 141k
Yes you can remove those if you are only interested in annotated genes.
Comment: Help for coding: Trinity for differential gene expression studies by mchour • 0
[This could help][1] [1]: https://github.com/trinityrnaseq/RNASeq_Trinity_Tuxedo_Workshop/wiki/Trinity-De-novo-Transcriptome-Assembly-W…
Answer: How to compare the quality of assemblies by colindaven 6.4k
Are you sure you have looked into the HiFiasm output files (fasta and GFA) in detail and excluded non-primary contigs, hap1, hap2 and other…
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