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27 results • Page
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12
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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
16 days ago by
David Langenberger
11k
8
votes
2
replies
778
views
News:
FINAL CALL - Single-Cell RNA-Seq Data Analysis: A Practical Introduction (May 6-8, 2024 in Berlin)
single-cell
sequencing
21 days ago by
David Langenberger
11k
3
votes
2
replies
571
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
28 days ago by
Johannes W. Dietrich
• 0
3
votes
0
replies
118
views
News:
Interested in Spatial Omics?
Bioconductor
Spatial-Omics
Spatial-Transcriptomics
updated 3 days ago by
Ram
43k • written 3 days ago by
carlopecoraro2
★ 2.5k
3
votes
0
replies
96
views
News:
Webinar “Learning Single-cell Atlases” with Dr. Fabian Theis, author of Scanpy on May 8
Scanpy
Generative-AI
scRNA
Machine-Learning
updated 5 hours ago by
Ram
43k • written 16 hours ago by
Claire Watson
▴ 60
2
votes
0
replies
118
views
News:
Online course: Genome Annotation
Genome-Assembly
RNA-seq
Genome-Annotation
updated 17 days ago by
Ram
43k • written 17 days ago by
carlopecoraro2
★ 2.5k
2
votes
0
replies
125
views
News:
Online Course Generalised Additive Mixed Models (GAMM): modelling space-time correlation structures
GAMM
Rlang
Rstats
Rproject
updated 15 days ago by
Ram
43k • written 15 days ago by
Transmitting Science communication
▴ 70
2
votes
0
replies
115
views
News:
Course Functional Programming with R
Rstats
TScourses
Rproject
KeepLearning
Rlang
16 days ago by
Transmitting Science communication
▴ 70
2
votes
0
replies
124
views
News:
Online Course Introduction to Network Analysis and Modelling
Python
Network-Analysis
updated 15 days ago by
Ram
43k • written 15 days ago by
Transmitting Science communication
▴ 70
1
vote
0
replies
174
views
News:
Landscape Genomics course in Switzerland
LFMM
Landscape-Genomics
Sambada
R
Local-Adaptation
updated 18 days ago by
Ram
43k • written 20 days ago by
carlopecoraro2
★ 2.5k
1
vote
0
replies
130
views
News:
Online Live Course: Introduction to Machine Learning in R
Rstats
TScourses
Rlang
Rproject
updated 15 days ago by
Ram
43k • written 15 days ago by
Transmitting Science communication
▴ 70
0
votes
0
replies
174
views
News:
Final Call - Bioinformatics Pipeline Development with Nextflow (May 27-29, 2024)
workshop
RNA-seq
nextflow
DNA-seq
updated 10 days ago by
Ram
43k • written 10 days ago by
David Langenberger
11k
0
votes
0
replies
113
views
News:
8th Berlin Summer School in NGS Data Analysis - Apply Now
DNA-seq
variant-calling
RNA-seq
illumina
transcriptomics
updated 1 day ago by
Ram
43k • written 2 days ago by
David Langenberger
11k
0
votes
0
replies
179
views
News:
Online course: Network Analysis in R
NetworkAnalyis
R
12 days ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
184
views
News:
Online course: Meta-analysis in R
Meta-Analysis
R
updated 15 days ago by
Ram
43k • written 15 days ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
86
views
News:
Master Meta-analysis with R (May 13-16) - Online!
Meta-Analysis
Statistics
R
updated 1 day ago by
Ram
43k • written 1 day ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
144
views
News:
Online course: Food Traceability Using Genomic Tools
Nanopore
Genomic-Tools
Illumina
Food-Traceability
updated 23 days ago by
Ram
43k • written 23 days ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
82
views
News:
Online course: DNA methylation
Pacbio
Nanopore
DnaMethylation
Evolution
4 days ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
120
views
News:
Online course: Multivariate Data Analysis with R and vegan
Multivariate-Statistics
vegan
R
updated 18 days ago by
Ram
43k • written 18 days ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
205
views
News:
Online course: Reproducibility in Bioinformatics
Singularity
Version-Control
Docker
Containers
updated 29 days ago by
Ram
43k • written 29 days ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
130
views
News:
upcoming online statistical courses
Statistics
R
Data-Analysis
updated 5 days ago by
Ram
43k • written 6 days ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
175
views
News:
Course - Agent-Based Modelling Using NetLogo - University of Lodz, Poland
Netlogo
Individual-Based-Models
Agent-Based-Models
updated 8 days ago by
Ram
43k • written 8 days ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
189
views
News:
Online course: Meta-analysis in R
Meta-Analysis
Statistics
R
updated 8 days ago by
Ram
43k • written 8 days ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
143
views
News:
Deadline Approaching: PETs for Public Health Challenge
privacy
public-health-challenge
updated 11 days ago by
Ram
43k • written 11 days ago by
polarise
▴ 380
0
votes
0
replies
146
views
News:
Online course: Eukaryotic Metabarcoding
Metabarcoding
Biodiversity
R
eDNA
25 days ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
110
views
News:
hands-on introduction to generalized linear models (GLMs) using R
Generalized-Linear-Models
GLM
R
updated 2 days ago by
Ram
43k • written 2 days ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
168
views
News:
Online course: Analysis of Prokaryotic Pangenomes (Last call)
Prokaryotic
Bacterial-Genomics
Pangenomics
updated 29 days ago by
Ram
43k • written 29 days ago by
carlopecoraro2
★ 2.5k
27 results • Page
1 of 1
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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Recent Awards •
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Scholar
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Alex Reynolds
35k
Popular Question
to
chaco001
▴ 40
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GenoMax
141k
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rheab1230
▴ 140
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BioinfGuru
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Recent Replies
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…
Comment: How to convert plink files to Hapmap Format
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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