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News: NCBI BLAST+ 2.2.15 now available for download
NCBI Taxonomy BLAST
6 months ago by PeterC_NCBI ▴ 410
0
votes
0
replies
325
views
News: Course - Introduction to R Shiny
R Data-Visualisation Shiny
updated 5 months ago by 44k • written 6 months ago by ★ 2.5k
0
votes
0
replies
297
views
News: Online expert taught RNA-Seq workshop
workshop
6 months ago by fturner ▴ 10
0
votes
0
replies
340
views
News: Course - RNAseq in non-model organisms
Pacbio RNA-seq Nanopore
updated 5 months ago by 44k • written 6 months ago by ★ 2.5k
0
votes
0
replies
351
views
News: Next-Generation Sequencing Data Analysis: A Practical Introduction (Nov 29 – Dec 1 in Munich, Germany)
RNAseq DNAseq NGS Workshop
6 months ago by Lars ★ 1.0k
0
votes
0
replies
341
views
News: Course - Computational Tumor Evolution
Tumor-Evolution Cancer-Genomics
updated 5 months ago by 44k • written 6 months ago by ★ 2.5k
0
votes
3
replies
1.5k
views
News: :: FINAL CALL :: A Practical Introduction to NGS Data Analysis (Nov 29 - Dec 1, 2023 in Munich, Germany) - only 2 seats left
DNA-Seq NGS RNA-Seq Workshop
6 months ago by David Langenberger 11k
0
votes
0
replies
375
views
News: Course: Genome Assembly using Oxford Nanopore Sequencing
Genome-Assembly Nanopore
updated 5 months ago by 44k • written 6 months ago by ★ 2.5k
0
votes
0
replies
331
views
News: Genemod - Lab Management Software
lab-management-software research
updated 6 months ago by 44k • written 6 months ago by • 0
1
vote
0
replies
328
views
News: course - Advanced Python Programming
Python-Programming
updated 6 months ago by 44k • written 6 months ago by ★ 2.5k
4
votes
2
replies
3.0k
views
News: New ebook: From cell line to Command line to learn computational biology
unix snakemake computational-biology RNA-seq
6 months ago by Ming Tommy Tang ★ 3.9k
0
votes
0
replies
424
views
News: GWAS course
R GWAS
updated 6 months ago by 44k • written 6 months ago by ★ 2.5k
0
votes
0
replies
351
views
News: Course - Introduction to Bayesian Data Analysis
R Statistics Bayesian Regression-Modeling
updated 5 months ago by 44k • written 6 months ago by ★ 2.5k
3
votes
0
replies
593
views
News: gnomAD v4 released
gnomad
6 months ago by Pierre Lindenbaum 162k
0
votes
0
replies
345
views
News: Course - Introduction to Machine Learning in R
R Statistical-Learning Omics Machine-Learning
updated 6 months ago by 44k • written 6 months ago by ★ 2.5k
0
votes
0
replies
432
views
News: Spatial Omics and Multiplexed Image Analysis course
Spatial-Omics Multiplexed-Image-Analysis
updated 6 months ago by 44k • written 6 months ago by ★ 2.5k
0
votes
0
replies
368
views
News: Virtual de novo RNA-seq (transcriptomics) Workshop: November 13-16, 2023
workshop RNA-seq transcriptomics
updated 6 months ago by 44k • written 6 months ago by ▴ 10
1
vote
0
replies
404
views
News: course - Comparative Genomics
Comparative-Genomics
updated 6 months ago by 44k • written 6 months ago by ★ 2.5k
0
votes
0
replies
423
views
News: Online course Python Machine Learning in Biology, November 16, 2023
machine-learning python course
updated 6 months ago by 44k • written 7 months ago by • 0
122
votes
44
replies
11k
views
24 follow
News: Help Make Biostar Better! Add Your Feedback, Opinions And Suggestions.
meta biostars
updated 6 months ago by 44k • written 11.5 years ago by 100k
0
votes
0
replies
395
views
News: Bioinformatics Phoenix
web-server
updated 7 months ago by 44k • written 7 months ago by • 0
1
vote
0
replies
335
views
News: Course - Developing R/Bioconductor Packages for Genomics
R package-development Genomics Bioconductor
updated 7 months ago by 44k • written 7 months ago by ★ 2.5k
0
votes
0
replies
352
views
News: Course -Metabarcoding in Microbial Ecology
R Qiime2 Microbial-Ecology Metabarcoding
updated 7 months ago by 44k • written 7 months ago by ★ 2.5k
0
votes
0
replies
376
views
News: Become a Bioinformatics Pro: Easy Understanding Starts Here
Structural-Bioinformatics
updated 7 months ago by 44k • written 7 months ago by • 0
0
votes
0
replies
397
views
News: Course - Flow Cytometry analysis with R/Bioconductor
R Flow-Cytometry Bioconductor
updated 7 months ago by 44k • written 7 months ago by ★ 2.5k
0
votes
1
reply
1.2k
views
News: FINAL CALL - Workshop - Single-Cell RNA-Seq Data Analysis: A Practical Introduction (November 8-10, 2023 in Berlin)
workshop RNA-Seq scRNA-Seq single-cell
7 months ago by David Langenberger 11k
0
votes
1
reply
867
views
News: FINAL CALL: Online Course - A Practical Introduction to NGS Data Analysis - October 23-25, 2023
DNA-seq Workshop RNA-seq
7 months ago by David Langenberger 11k
0
votes
0
replies
430
views
News: Course - Metabolomics in R/Bioconductor
R Data-Analysis Metabolomics Bioconductor
updated 7 months ago by 44k • written 7 months ago by ★ 2.5k
13
votes
9
replies
2.7k
views
7 follow
News: Inviting NEW Biostars moderators to join Biostars slack channel
slack moderator
7 months ago by GenoMax 142k
0
votes
0
replies
386
views
News: Cellosaurus release 47 is available
cellosauraus cell-line biocuration knowledgebase
updated 7 months ago by 44k • written 7 months ago by ▴ 120
0
votes
0
replies
346
views
News: Course: Seascape Genomics in R course
R GEA Seascape-Genomics Adaptation-Genomics
updated 7 months ago by 44k • written 7 months ago by ★ 2.5k
0
votes
0
replies
359
views
News: Course :MACHINE LEARNING - A HANDS-ON INTRODUCTION IN R
R Statistical-Learning Omics Machine-Learning
updated 7 months ago by 44k • written 7 months ago by ★ 2.5k
0
votes
0
replies
495
views
News: Course - Gene Set Enrichment Analysis in R/Bioconductor
Gene-Set-Enrichment-Analysis GSEA R Genomics Bioconductor
updated 7 months ago by 44k • written 7 months ago by ★ 2.5k
0
votes
0
replies
373
views
News: New NCBI Datasets APIs to Replace Old Ones
NCBI API Datasets
8 months ago by PeterC_NCBI ▴ 410
0
votes
0
replies
418
views
News: RADseq data analysis course
RADseq Phylogenomics Stacks Population-Genomics
7 months ago by carlopecoraro2 ★ 2.5k
0
votes
1
reply
638
views
News: EMBL-EBI virtual course | Introduction to RNA-seq and functional interpretation
RNA-seq
updated 8 months ago by 44k • written 8 months ago by • 0
1
vote
0
replies
424
views
News: Online Training - Bioinformatics Pipeline Development with Nextflow (November 15-17, 2023)
nextflow automation pipeline development
8 months ago by David Langenberger 11k
2
votes
1
reply
484
views
News: Successful NCBI NIAID Codeathon on VCF Files in SARS-CoV-2 Genomics
NCBI Codeathon
updated 8 months ago by 10k • written 8 months ago by ▴ 410
0
votes
0
replies
373
views
News: Research Breakthrough in Identifying Viral Escape Mutations for Improved Therapeutic Design
sequence-analysis sars-cov-2 spike-protein
updated 8 months ago by 44k • written 8 months ago by • 0
0
votes
0
replies
363
views
News: Course: Data Manipulation and Visualisation with Python
Python Data-Visualization Data-Manipulation
updated 8 months ago by 44k • written 8 months ago by ★ 2.5k
0
votes
2
replies
949
views
News: The Practice of RADseq: Population Genomics Analysis with Stacks (RADS02) Early bird deadline approaching - 20th September
population-genomics radseq stacks
updated 8 months ago by ★ 1.7k • written 8 months ago by ▴ 110
0
votes
0
replies
353
views
News: Course - GLMMs in R
GLMM Mixed-Models
updated 8 months ago by 44k • written 8 months ago by ★ 2.5k
0
votes
0
replies
368
views
News: Introduction to Nextflow (2 seats left)
Nextflow Workflow Reproducibility
updated 8 months ago by 44k • written 8 months ago by ★ 2.5k
0
votes
0
replies
428
views
News: Genomic Prediction course
Genomic-Prediction GWAS
updated 7 months ago by 44k • written 8 months ago by ★ 2.5k
0
votes
0
replies
469
views
News: course - Population Genomics Using Ancient DNA Data
Genomics aDNA Population-Genomics
updated 7 months ago by 44k • written 8 months ago by ★ 2.5k
3
votes
5
replies
1.3k
views
News: Ensembl Release 104 and newer GTF files no longer have genes sorted by position
Ensembl GTF
updated 8 months ago by ▴ 120 • written 18 months ago by ▴ 30
0
votes
0
replies
406
views
News: NCBI ClinVar XML update to accommodate somatic variants
SNP XML ClinVar NCBI
4 months ago by PeterC_NCBI ▴ 410
0
votes
0
replies
316
views
News: Workshop on Virtual Screening on Drug Discovery from scratch (15-16 September, 2023 : 07.00 - 09.00 PM IST)
workshop virtual-screening
updated 7 months ago by 44k • written 8 months ago by • 0
0
votes
0
replies
348
views
News: RNAseq data analysis with R/Bioconductor
R RNA-seq Bioconductor
updated 7 months ago by 44k • written 8 months ago by ★ 2.5k
0
votes
0
replies
359
views
News: Course - RNAseq in non-model organisms
R Differential-Expression-Analysis RNA-seq Bioconductor
updated 7 months ago by 44k • written 8 months ago by ★ 2.5k
1,000 results • Page 3 of 20
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Answer: plink2 cannot make bed file
Answer: plink2 cannot make bed file
Answer: Conda, bioconda, anaconda, are they different?
Answer: Conda, bioconda, anaconda, are they different?
Gene Set Enrichment Analysis
Comment: Unexpected read length from NGS
Answer: Unexpected read length from NGS
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Comment: How to scrape BioMart data from https://sorfs.ugent.be/ website by Pierre Lindenbaum 162k
did you ask the authors to restore their server ?
Comment: Single cell analysis: Unable to subset cells in seurat object using desired nFea by sc_analysis • 0
Yes. But after applying: merged_seurat_objects_filtered <- subset(x = merged_seurat_objects, subset = nFeature_RNA > 200 & nFeature_R…
Comment: Single-cell ambient RNA correction: SoupX vs decontX contamination fraction by fracarb8 ★ 1.6k
This [paper][1] provides a comparison of the three methods in different settings. [1]: https://genomebiology.biomedcentral.com/articles…
Comment: Bowtie 1.3.1 alignment error as array 21720,23124 produces sam bam files by Deepthi • 0
pop up with sam error . Error reading _rstarts[] array: 21720, 23124
Comment: Bowtie 1.3.1 alignment error as array 21720,23124 produces sam bam files by ATpoint 82k
See me edit I just made for the fastq check.
Comment: Bowtie 1.3.1 alignment error as array 21720,23124 produces sam bam files by Deepthi • 0
Thanks will check and update here.
Answer: Bowtie 1.3.1 alignment error as array 21720,23124 produces sam bam files by ATpoint 82k
bowtie -x idx file.fastq | samtools view -o out.bam You might be messing up things with these positional arguments. Use this above. Us…
Comment: Annotating single cell data automatically by Francesco ▴ 10
- In order to run Azimuth: ``` AzimuthClusters <- RunAzimuth(seurat_obj, reference = "pbmcref") ``` - singleR ``` surveyRefere…
Comment: Single cell analysis: Unable to subset cells in seurat object using desired nFea by fracarb8 ★ 1.6k
You are not subsetting based on `nFeature`. You are subsetting based on `nFeature` **AND** `nCount` **AND** `perc mt`.
Answer: Single-cell ambient RNA correction: SoupX vs decontX contamination fraction by txema.heredia ▴ 130
Update: I ran CellBender on these samples and compared its results with SoupX and DecontX. vs SoupX: ![cellbender vs SoupX][1] …
Comment: Unexpected read length from NGS by QX • 0
thank you all!
Comment: How to calculate nucleotide diversity (mtDNA, PacBio_data), Suggest me some tool by hashim.rana11 ▴ 20
Initially, I tried using Samtools and BCFtools, followed by running a script in Python (PyCharm) to measure nucleotide diversity![nucleoti…
Comment: Best Practice On Variant Discovery For Bacteria? by Ruqaiya • 0
I used HaploTypecaller but my plasmid reads are not present in the output vcf file ... but it's there in my input file
Answer: How to calculate nucleotide diversity (mtDNA, PacBio_data), Suggest me some tool by Michael 54k
Variants should be called using a specialized mitochondrial variant caller, e.g.: [GATK Mutect2 CallMt][1] Then, pi, Tajima's D, and oth…
Comment: Splitting query fasta file for Diamond Blastp make the process faster? by kmat • 0
I used `seqkit split` to divide the query FASTA file into 10 parts and then ran `diamond blastp` on each file using 44 threads. The process…
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