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1,000 results • Page
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News:
Announcing workshop on Declarative Programming in Biology and Medicine (Seattle, Sept. 2023)
medicine
declmed
declarative
icfp
precision
12 months ago by
Stephen
• 0
0
votes
0
replies
423
views
News:
Course live online Introduction to Bayesian Analyses using R, May 8th-12th, 2023
bayesian
RProject
course
online
13 months ago by
Sole
• 0
0
votes
2
replies
886
views
News:
Course - Metagenomics, metatranscriptomics, and multi'omics for microbial community Studies
Metagenomics
Metatranscriptomics
Multiomics
updated 13 months ago by
Ram
43k • written 13 months ago by
carlopecoraro2
★ 2.5k
10
votes
4
replies
1.3k
views
News:
RNA-Seq Data Analysis Workshop - Join us in Berlin, Germany from March 27-30, 2023!
NGS
transcriptomics
workshop
updated 13 months ago by
kng
▴ 30 • written 14 months ago by
David Langenberger
11k
1
vote
0
replies
942
views
News:
Summer School in Bioinformatics
Genomics
Docker
RNA-seq
updated 13 months ago by
Ram
43k • written 13 months ago by
carlopecoraro2
★ 2.5k
1
vote
1
reply
669
views
News:
Sign-ups for the St. Jude KIDS23 BioHackathon (May 3-5th) open through March 15th!
stjude
hackathon
13 months ago by
jared.andrews07
★ 16k
1
vote
0
replies
437
views
News:
Course - BIOINFORMATIC ANALYSIS OF TRANSPOSABLE ELEMENTS
Transposable-Elements
TE
Genome-Assembly
updated 13 months ago by
Ram
43k • written 13 months ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
442
views
News:
Environmental Metagenomics course
Environmental-Metagenomics
updated 13 months ago by
Ram
43k • written 13 months ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
418
views
News:
Course - GENERALIZED LINEAR MODELS in R
GLM
R
Generalised-Linear-Model
updated 11 months ago by
Ram
43k • written 13 months ago by
carlopecoraro2
★ 2.5k
1
vote
0
replies
485
views
News:
Virtual Single Cell RNA-seq Workshop
single
genomics
cell
expression
rna-seq
workshop
gene
14 months ago by
mia.nahom
▴ 10
1
vote
0
replies
447
views
News:
Advanced Bayesian statistics in R course
Statistics
RegressionModeling
Bayesian
R
14 months ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
378
views
News:
Course - INTRODUCTION TO THE ANALYSIS OF LONGITUDINAL DATA WITH R
Genomics
LongitudinalData
R
14 months ago by
carlopecoraro2
★ 2.5k
1
vote
0
replies
908
views
News:
The GDC Legacy Archive is retiring soon.
genomic-data-commons
tcga
gdc
updated 14 months ago by
Ram
43k • written 14 months ago by
Zhenyu Zhang
★ 1.2k
0
votes
0
replies
446
views
News:
course MULTIVARIATE DATA ANALYSIS WITH R AND VEGAN
Vegan
MULTIVARIATEDATAANALYSIS
Statistics
R
14 months ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
386
views
News:
course - single-cell RNAseq with R/Bioconductor
Bioconductor
single-cell
genomics
RNAseq
updated 13 months ago by
Ram
43k • written 14 months ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
571
views
News:
Course - Analysis of PROKARYOTIC PANGENOMES
Genomics
Pangenomes
updated 14 months ago by
Ram
43k • written 14 months ago by
carlopecoraro2
★ 2.5k
5
votes
3
replies
905
views
News:
March 13-16: Virtual Nextflow and nf-core training event in 5 languages
nf-core
pipeline
Nextflow
updated 13 months ago by
Maxime Garcia
▴ 340 • written 14 months ago by
Matthias Zepper
4.5k
0
votes
1
reply
421
views
News:
Courses in March. -still a few seats available
Bioconductor
Genomics
R
updated 14 months ago by
Ram
43k • written 14 months ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
391
views
News:
course - Next steps in applied Bayesian regression modeling
Statistics
RegressionModeling
Bayesian
R
14 months ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
476
views
News:
Introduction to GWAS course in June
GWAS
R
updated 13 months ago by
Ram
43k • written 14 months ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
737
views
News:
Introduction to GWAS course (6th edition) - June, 5th-8th
GWAS
R
updated 14 months ago by
Ram
43k • written 14 months ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
355
views
News:
Course - Version Control for Researchers
VersionControl
GIT
Github
14 months ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
504
views
News:
Course - INTRODUCTION TO PYTHON PROGRAMMING FOR BIOLOGISTS
Programming
Python
updated 14 months ago by
Ram
43k • written 14 months ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
396
views
News:
Eukaryotic Metabarcoding course
eDNA
Metabarcoding
updated 14 months ago by
Ram
43k • written 14 months ago by
carlopecoraro2
★ 2.5k
0
votes
3
replies
873
views
News:
NCBI update complete. Aspera users please update your client.
NCBI
Submissions
GenBank
14 months ago by
PeterC_NCBI
▴ 410
0
votes
0
replies
375
views
News:
Course - Mass Spectrometry and Proteomics in R/Bioconductor
Bioconductor
MassSpectrometry
R
Proteomics
15 months ago by
carlopecoraro2
★ 2.5k
1
vote
0
replies
588
views
News:
Course - Machine Learning in R (for omics data)
Genomics
omics
MachineLearning
R
15 months ago by
carlopecoraro2
★ 2.5k
2
votes
0
replies
420
views
News:
Course - Reproducibility in Bioinformatics
Reproducibility
updated 14 months ago by
Ram
43k • written 15 months ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
381
views
News:
course - Multivariate data analysis with R and vegan
Statistics
MultivariateAnalysis
R
vegan
15 months ago by
carlopecoraro2
★ 2.5k
0
votes
2
replies
1.1k
views
News:
Online Course - A Practical Introduction to NGS Data Analysis (February 01-03, 2023)
NGS
DNAseq
variant-calling
RNAseq
15 months ago by
David Langenberger
11k
0
votes
0
replies
467
views
News:
Bioinformatics courses in February
Genomics
Bioinformatics-Training
updated 10 months ago by
Ram
43k • written 15 months ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
1.3k
views
News:
Reminder: NCBI Aspera access, update Aspera Connect by Feb 1, 2023
Aspera
NCBI
SRA
GenBank
15 months ago by
PeterC_NCBI
▴ 410
1
vote
2
replies
679
views
News:
Course: Network Analysis in R
NetworkAnalyis
R
15 months ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
474
views
News:
de novo RNA-seq Analysis Workshop
virtual
workshop
rna
transcriptome
15 months ago by
mia.nahom
▴ 10
0
votes
0
replies
618
views
News:
Genomic Prediction course
Selective-Breeding
Genomic-Prediction
updated 14 months ago by
Ram
43k • written 15 months ago by
carlopecoraro2
★ 2.5k
1
vote
0
replies
685
views
News:
course: Meta-analysis in R
Statistics
MetaAnalysis
R
15 months ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
552
views
News:
GSEA in R/Bioconductor course
Bioconductor
R
GSEA
GeneSetEnrichmentAnalysis
15 months ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
936
views
News:
For NCBI Aspera access, update Aspera Connect by Feb 1, 2023
Aspera
NCBI
GenBank
15 months ago by
PeterC_NCBI
▴ 410
0
votes
0
replies
472
views
News:
Metabarcoding in Microbial Ecology
Metabarcoding
Qiime2
16S
MicrobialEcology
R
15 months ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
441
views
News:
Metagenomics tools recommeder system
NGS
Metagenomics
Recommender-system
updated 15 months ago by
Ram
43k • written 15 months ago by
KATA
• 0
0
votes
0
replies
742
views
News:
Hands-On NGS Data Analysis Workshops 2023
NGS
Workshop
RNA-Seq
DNA-Seq
15 months ago by
David Langenberger
11k
1
vote
5
replies
1.1k
views
News:
Cancer Genomics course - 2 seats left
Genomics
Cancer-Genomics
R
updated 14 months ago by
Ram
43k • written 15 months ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
449
views
News:
Course on Generalised Additive Models In R
Statistics
GAMs
R
15 months ago by
carlopecoraro2
★ 2.5k
0
votes
1
reply
654
views
News:
Sex Chromosome Evolution course
Genomics
Sex-Chromosome-Evolution
updated 14 months ago by
Ram
43k • written 15 months ago by
carlopecoraro2
★ 2.5k
1
vote
2
replies
1.8k
views
News:
New chat server (Discord) for bioinformatics
community
15 months ago by
Samuel Lampa
★ 1.3k
0
votes
0
replies
647
views
News:
Online course - Genome Assembly and Annotation
Long-reads
Genome-Annotation
Biodiversity
Genome-Assembly
updated 14 months ago by
Ram
43k • written 15 months ago by
carlopecoraro2
★ 2.5k
1
vote
3
replies
917
views
News:
NCBI BLAST ClusteredNR database now available for blastx and PSI-BLAST searches
PSI-BLAST
blastx
BLAST
NCBI
ClusteredNR
15 months ago by
PeterC_NCBI
▴ 410
0
votes
0
replies
593
views
News:
Winter School in Bioinformatics - last seats available
Genomics
Unix
RNA-seq
docker
updated 14 months ago by
Ram
43k • written 16 months ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
508
views
News:
Virtual RNA-seq Analysis (Model Organism) Workshop
virtual
expression
rna-seq
analysis
workshop
16 months ago by
mia.nahom
▴ 10
0
votes
0
replies
524
views
News:
Introduction to R Shiny course
WebApplications
R
RShiny
16 months ago by
carlopecoraro2
★ 2.5k
1,000 results • Page
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Recent Votes
Comment: Heatmap and rna-seq
Answer: Heatmap and rna-seq
Comment: Heatmap and rna-seq
A: should FASTA files be sorted before indexed with SAMtools?
Answer: A faidx-indexed FASTA format file or a FASTA format file
Answer: Source other conda environments in a nextflow pipeline when nextflow itself is i
Comment: Create a new bed file with all pairwise combinations between two other bed files
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Answer: Correct way to compare multiple treaments between RNA-Seq samples using edgeR?
by
Gordon Smyth
★ 7.0k
The comparison you've done seems exactly right to test whether treatment 2 modifies or enhances the effect of treatment 1. Have you exam…
Answer: How to use limma to find differentially expressed genes in response to a continu
by
Gordon Smyth
★ 7.0k
There's no need for form a contrast because the score variable is already in the model. A continuous variable is its own contrast. Just run…
Comment: Create a new bed file with all pairwise combinations between two other bed files
by
J
▴ 10
Oh wow, bedops closest-features, how did I overlook that!! I didn't know about it; thank you! Your awk script is beautiful. This worked per…
Comment: Create a new bed file with all pairwise combinations between two other bed files
by
J
▴ 10
Thank you Pierre! I'll try this out with my full data set.
Answer: DNA methylation preprocessing
by
cao510927
▴ 30
I happend to see one paper doing the similar thing, share it with you guys, "A systematic evaluation of normalization methods and probe rep…
Answer: Create a new bed file with all pairwise combinations between two other bed files
by
Alex Reynolds
35k
I think Pierre's answer might be correct for your test input, but it doesn't account for the start position of the reference element and so…
Comment: Highest variable features in single cell data
by
bk11
★ 2.4k
You need to be clear about how `Seurat` defines highly variable genes here. Highly variable genes are the genes that have very high express…
Comment: Heatmap and rna-seq
by
GenoMax
141k
Please include a link when you are recommending a tool. There can be programs with similar names.
Answer: Heatmap and rna-seq
by
dsull
★ 5.8k
Check out clustergrammer from Avi Ma'ayan's lab.
Comment: how to combine multiple RNAseq count files into a single dataframe in R and unix
by
Ram
43k
Simple: ```r data <- lapply(files, read_tsv) data <- Reduce(merge, data) # or Reduce(full_join, data) ``` <a href="" title="Text added bec…
Answer: Source other conda environments in a nextflow pipeline when nextflow itself is i
by
ATpoint
82k
You can make each process use a dedicated environment, see https://www.nextflow.io/docs/latest/conda.html#use-existing-conda-environments …
Comment: how to combine multiple RNAseq count files into a single dataframe in R and unix
by
BioinfGuru
★ 1.7k
Hi, Just thought I'd share this code snippet here for when each file contains multiple samples. I tried using lapply (as suggested by Ram)…
Comment: Low mapping rate with Salmon
by
i.sudbery
19k
Take your STAR alignment and sum all the counts for each gene. You can either do this by providing an annotation to STAR, or by running fea…
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by
bk11
★ 2.4k
If you run your data with plink 2.0, you will have ERRCODE column in your result file showing the reason behind "NA" p-value. https://www.b…
Comment: genome assembly records not present in assembly_summary.txt
by
sapuizait
▴ 10
jesus its in the Genbank file and I was looking at the refseq! I m such a moron - thanks for pointing it out -sorry about that :(
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