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News: The Biostar Handbook. A bioinformatics e-book for beginners.
training handbook
updated 12 weeks ago by 2.6k • written 7.4 years ago by 100k
0
votes
0
replies
72
views
News: Online course: Meta-analysis in R
Meta-Analysis Statistics R
updated 9 hours ago by 43k • written 11 hours ago by ★ 2.5k
0
votes
0
replies
75
views
News: Course - Agent-Based Modelling Using NetLogo - University of Lodz, Poland
Netlogo Individual-Based-Models Agent-Based-Models
updated 9 hours ago by 43k • written 13 hours ago by ★ 2.5k
0
votes
0
replies
144
views
News: Final Call - Bioinformatics Pipeline Development with Nextflow (May 27-29, 2024)
workshop RNA-seq nextflow DNA-seq
updated 2 days ago by 43k • written 2 days ago by 11k
0
votes
0
replies
123
views
News: Deadline Approaching: PETs for Public Health Challenge
privacy public-health-challenge
updated 3 days ago by 43k • written 3 days ago by ▴ 380
0
votes
0
replies
150
views
News: Online course: Network Analysis in R
NetworkAnalyis R
4 days ago by carlopecoraro2 ★ 2.5k
0
votes
0
replies
171
views
News: Online course: Meta-analysis in R
Meta-Analysis R
updated 7 days ago by 43k • written 7 days ago by ★ 2.5k
1
vote
0
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116
views
News: Online Live Course: Introduction to Machine Learning in R
Rstats TScourses Rlang Rproject
updated 7 days ago by 43k • written 7 days ago by ▴ 70
2
votes
0
replies
111
views
News: Online Course Generalised Additive Mixed Models (GAMM): modelling space-time correlation structures
GAMM Rlang Rstats Rproject
updated 7 days ago by 43k • written 7 days ago by ▴ 70
2
votes
0
replies
107
views
News: Online Course Introduction to Network Analysis and Modelling
Python Network-Analysis
updated 7 days ago by 43k • written 7 days ago by ▴ 70
2
votes
0
replies
104
views
News: Course Functional Programming with R
Rstats TScourses Rproject KeepLearning Rlang
8 days ago by Transmitting Science communication ▴ 70
12
votes
2
replies
421
views
News: 8th Berlin Summer School in NGS Data Analysis (June 10-14, 2024) - already half booked
Workshop RNA-Seq DNA-Seq Illumina
8 days ago by David Langenberger 11k
2
votes
0
replies
105
views
News: Online course: Genome Annotation
Genome-Assembly RNA-seq Genome-Annotation
updated 9 days ago by 43k • written 9 days ago by ★ 2.5k
0
votes
0
replies
104
views
News: Online course: Multivariate Data Analysis with R and vegan
Multivariate-Statistics vegan R
updated 10 days ago by 43k • written 10 days ago by ★ 2.5k
1
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0
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158
views
News: Landscape Genomics course in Switzerland
LFMM Landscape-Genomics Sambada R Local-Adaptation
updated 10 days ago by 43k • written 12 days ago by ★ 2.5k
8
votes
2
replies
747
views
News: FINAL CALL - Single-Cell RNA-Seq Data Analysis: A Practical Introduction (May 6-8, 2024 in Berlin)
single-cell sequencing
13 days ago by David Langenberger 11k
0
votes
0
replies
127
views
News: Online course: Food Traceability Using Genomic Tools
Nanopore Genomic-Tools Illumina Food-Traceability
updated 15 days ago by 43k • written 15 days ago by ★ 2.5k
0
votes
0
replies
135
views
News: Online course: Eukaryotic Metabarcoding
Metabarcoding Biodiversity R eDNA
17 days ago by carlopecoraro2 ★ 2.5k
3
votes
2
replies
532
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
20 days ago by Johannes W. Dietrich • 0
0
votes
0
replies
184
views
News: Online course: Reproducibility in Bioinformatics
Singularity Version-Control Docker Containers
updated 21 days ago by 43k • written 21 days ago by ★ 2.5k
0
votes
0
replies
152
views
News: Online course: Analysis of Prokaryotic Pangenomes (Last call)
Prokaryotic Bacterial-Genomics Pangenomics
updated 21 days ago by 43k • written 21 days ago by ★ 2.5k
0
votes
0
replies
149
views
News: Online course: Introduction to GWAS
GWAS Imputation StatisticalPower
25 days ago by carlopecoraro2 ★ 2.5k
0
votes
0
replies
151
views
News: Online course: Adaptation Genomics
StructuralVariants Selection AdaptationGenomics PopulationStructure
4 weeks ago by carlopecoraro2 ★ 2.5k
0
votes
0
replies
143
views
News: Online course: Analysis of Prokaryotic Pangenomes
BacterialGenomics Pangenomics
4 weeks ago by carlopecoraro2 ★ 2.5k
0
votes
0
replies
220
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
158
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
260
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
177
views
News: Learn how to create robust bioinformatics pipelines for reproducible and comparable NGS analyses
nextflow pipeline workshop
5 weeks ago by David Langenberger 11k
0
votes
0
replies
142
views
News: Online course: Genome Assembly and Annotation - 3 seats left
Genome-Assembly Galaxy Genome-Annotation
updated 5 weeks ago by 43k • written 5 weeks ago by ★ 2.5k
0
votes
0
replies
140
views
News: Call for abstract: Quest for Orthologs meeting in Montreal
conference phylogeny comparativegenomics orthology evolution
5 weeks ago by sina.majidian ▴ 20
1
vote
0
replies
145
views
News: shournal: A Tool for Bioinformaticians to Boost Research Reproducibility
reproducability terminal bash
6 weeks ago by David Langenberger 11k
1
vote
1
reply
184
views
News: Integrated Genome Browser (IGB) Office Hours
Integrated-Genome-Browser IGB
updated 6 weeks ago by 43k • written 6 weeks ago by • 0
0
votes
0
replies
175
views
News: Online course: Network Analysis in Systems Biology with R/Bioconductor
R RNA-seq Network-Analysis Bioconductor Systems-Biology
updated 6 weeks ago by 43k • written 6 weeks ago by ★ 2.5k
0
votes
0
replies
206
views
News: The 2024 Canadian Bioinformatics Workshops are here!
CBW workshop training
7 weeks ago by bioinformatics.ca • 0
0
votes
0
replies
164
views
News: Live online course Data Manipulation with R Tidyverse, 3 and 5 of April
R manipulation tidyverse data
7 weeks ago by Sole • 0
0
votes
0
replies
183
views
News: Online course: Reproducibility in Bioinformatics
Docker Singularity WorkflowManagementSystems Reproducibility
7 weeks ago by carlopecoraro2 ★ 2.5k
0
votes
0
replies
237
views
News: Online course: Genome Assembly Using Oxford Nanopore Sequencing - 4 seats remaining
GenomeAssembly Nanopore longreads
7 weeks ago by carlopecoraro2 ★ 2.5k
0
votes
0
replies
215
views
News: Webinar about scRNA-seq cell type prediction
scRNAseq
updated 7 weeks ago by 141k • written 7 weeks ago by • 0
0
votes
0
replies
225
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
193
views
News: Online course: Model-Based Demographic Inference from Population Genomics
Demographic-Inference Population-Genomics Demographic-Models
updated 8 weeks ago by 43k • written 8 weeks ago by ★ 2.5k
0
votes
0
replies
160
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
174
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
167
views
News: NGS Data Analysis Courses for Absolute Beginners
NGS DNAseq RNAseq singlecellsequencing DataAnalysis
9 weeks ago by David Langenberger 11k
0
votes
0
replies
184
views
News: Online course: Genome Assembly and Annotation
Annotation Genome-Assembly Nanopore Pacbio
updated 9 weeks ago by 43k • written 9 weeks ago by ★ 2.5k
0
votes
0
replies
161
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
162
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
923
views
News: FINAL CALL: RNA-Seq Data Analysis Workshop (March 11 - 14, 2024 in Berlin, Germany)
NGS RNA-Seq Workshop
10 weeks ago by David Langenberger 11k
0
votes
0
replies
209
views
News: Online course : Meta-Analysis in R
R Meta-Analysis Statistics
updated 10 weeks ago by 43k • written 10 weeks ago by ★ 2.5k
1
vote
0
replies
178
views
News: Cellosaurus release 48 is available
cell-line biocuration cellosaurus knowledgebase
11 weeks ago by Amos Bairoch ▴ 120
0
votes
0
replies
220
views
News: Online course: Genome Assembly Using Oxford Nanopore Sequencing
Genome-Assembly Nanopore
updated 11 weeks ago by 43k • written 11 weeks ago by ★ 2.5k
895 results • Page 1 of 18
Recent Votes
C: samtools sort bam file
A: samtools sort bam file
Answer: Downloaded pdb's on rcsb.org
Comment: Downloaded pdb's on rcsb.org
Comment: Downloaded pdb's on rcsb.org
Comment: Downloaded pdb's on rcsb.org
Answer: Downloaded pdb's on rcsb.org
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Comment: Removing duplicates by joe ▴ 500
I'd try those OP @samuel recommends My guess is you're new to ONT, fast5 is the 'raw data' which is current over time...other than generat…
Comment: RNA seq differential expression analysis by swbarnes2 14k
No. Find a tutorial, try it, then if you have specific questions, ask of the galaxy help site.
Answer: Adding CB tag to bam file by swbarnes2 14k
Shouldn't you use PicardTools for this?
Comment: Downloaded pdb's on rcsb.org by Ram 43k
Sure. Or, one could do: bash try.bash "Homo sapiens" AHR | xargs -I v_pdb curl -s -o v_pdb.pdb https://files.rcsb.org/view/v_pdb.pdb
Comment: Downloaded pdb's on rcsb.org by iamsmor • 0
thank you so much
Comment: Downloaded pdb's on rcsb.org by GenoMax 141k
This may be the best option. Get the PDB ID's $ ./get.sh "Mus musculus" AHR 4M4X 5NJ8 5V0L 8H77 Then use `curl` to g…
Comment: Downloaded pdb's on rcsb.org by Ram 43k
It gives you the first 25 results though. I'll see if I can change that. EDIT: I've updated that number to 250. I'm hoping you won't need …
Comment: Downloaded pdb's on rcsb.org by iamsmor • 0
thank you very much
Answer: Downloaded pdb's on rcsb.org by Ram 43k
I'm going to build off of OP's query and give them a simple script: ```bash organism=$(echo $1 | sed 's/ /%20/g') gene=$2 curl -s https:/…
Comment: miRNAs quantification using mirdeep2 tool by GenoMax 141k
This question does not make complete sense. If you have your own data files why do you need deep sequencing reads? Genome (can be download…
Comment: Downloaded pdb's on rcsb.org by GenoMax 141k
For a non-programmer using the search builder link included above may be the best option. Even that is not very user friendly.
Comment: Downloaded pdb's on rcsb.org by Ram 43k
That's how they seem to have written their query - automating that is a bit of a pain though as it takes a crazy JSON as input.
Comment: Downloaded pdb's on rcsb.org by GenoMax 141k
You can use the "Advanced query" builder (https://www.rcsb.org/search/advanced ) to create a query like: https://www.rcsb.org/search?requ…
Comment: Downloaded pdb's on rcsb.org by Ram 43k
PDB has a search API: https://search.rcsb.org/#search-example-1 Here's the JSON from your search query: ``` { "query": { "type": "grou…
Comment: Downloaded pdb's on rcsb.org by iamsmor • 0
Thank you very much. Actually I looked at there, but actually I want to find something like according to search url like this [QUERY: Gene …
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