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1,000 results • Page
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1
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News:
New version of ElasticBLAST (1.0.0) available.
NCBI
ElasticBLAST
BLAST
12 weeks ago by
PeterC_NCBI
▴ 190
0
votes
1
reply
297
views
News:
Courses in January - still a few seats available
R-Shiny
Genomics
Unix
R
updated 6 weeks ago by
Ram
38k • written 3 months ago by
carlopecoraro2
★ 2.3k
0
votes
0
replies
185
views
News:
Sex Chromosome Evolution course
Genomics
Sex-Chromosome-Evolution
updated 3 months ago by
Ram
38k • written 3 months ago by
carlopecoraro2
★ 2.3k
0
votes
0
replies
233
views
News:
Cellosaurus release 44 is available
cellosaurus
cell-line
updated 3 months ago by
Ram
38k • written 3 months ago by
Amos Bairoch
▴ 110
0
votes
0
replies
214
views
News:
Introductory video to the Cellosaurus
cellosaurus
cell-line
updated 3 months ago by
Ram
38k • written 3 months ago by
Amos Bairoch
▴ 110
0
votes
3
replies
491
views
News:
Nvidia Clara Parabricks is FREE for R&D
nvidia
workflow
gpu
updated 3 months ago by
4galaxy77
2.6k • written 3 months ago by
Pierre Lindenbaum
153k
2
votes
3
replies
333
views
News:
NCBI Comparative Genome Viewer now allows searches for genes across aligned assemblies
Browser
NCBI
Alignments
Genome
3 months ago by
PeterC_NCBI
▴ 190
1
vote
6
replies
675
views
News:
Course - FLOW CYTOMETRY ANALYSIS WITH R/BIOCONDUCTOR
Bioconductor
FlowCytometry
R
updated 9 weeks ago by
synat.keam
▴ 70 • written 3 months ago by
carlopecoraro2
★ 2.3k
0
votes
0
replies
181
views
News:
INTRODUCTION TO ANALYTICAL PALEOBIOLOGY: FOSSIL RECORD BIASES, DIVERSITY, & BIOGEOGRAPHY
Biogeography
Paleobiology
R
3 months ago by
carlopecoraro2
★ 2.3k
1
vote
0
replies
194
views
News:
Analysis of Cancer Genomes Using R and Bioinformatic Tools
Genomics
Cancer-Genomics
R
updated 3 months ago by
Ram
38k • written 3 months ago by
carlopecoraro2
★ 2.3k
0
votes
0
replies
307
views
News:
course - GENOME ASSEMBLY USING OXFORD NANOPORE SEQUENCING
Long-reads
Assembly
Nanopore
Genome
3 months ago by
carlopecoraro2
★ 2.3k
0
votes
0
replies
165
views
News:
Online training - VERSION CONTROL FOR RESEARCHERS
Version
Control
Git
Github
3 months ago by
carlopecoraro2
★ 2.3k
0
votes
1
reply
235
views
News:
Research Training In NGS Data Analysis
analysis
data-analysis
updated 3 months ago by
Ram
38k • written 3 months ago by
RASALSI
• 0
0
votes
0
replies
277
views
News:
Bayesian regression modeling in R course
RegressionModeling
Bayesian
R
3 months ago by
carlopecoraro2
★ 2.3k
0
votes
4
replies
449
views
News:
Ensembl Release 104 and newer GTF files no longer have genes sorted by position
Ensembl
GTF
updated 3 months ago by
Ben_Ensembl
★ 2.2k • written 3 months ago by
dlaehnemann
▴ 10
0
votes
0
replies
220
views
News:
Genome Assembly and Annotation course
Annotation
Nanopore
GenomeAssembly
Pacbio
4 months ago by
carlopecoraro2
★ 2.3k
3
votes
0
replies
949
views
News:
Changes to the default NCBI BLAST nucleotide database (nt). Learn more and provide feedback!
NCBI
Databases
BLAST
4 months ago by
PeterC_NCBI
▴ 190
0
votes
0
replies
227
views
News:
Nextflow online training
Nextflow
Workflow
Reproducibility
updated 3 months ago by
Ram
38k • written 4 months ago by
carlopecoraro2
★ 2.3k
0
votes
2
replies
945
views
News:
:: FINAL CALL :: Next-Generation Sequencing Data Analysis: A Practical Introduction (December 12-14, 2022 in Munich, Germany)
rnaseq
dnaseq
sequencing
ngs
workshop
4 months ago by
David Langenberger
9.9k
0
votes
0
replies
259
views
News:
The Association for Single Cell Analysis (ASCA)
genomics
singlecell
metabolomics
sequencing
proteomics
4 months ago by
dnsv.ev
• 0
0
votes
0
replies
212
views
News:
Deep Learning in Population Genomics and Phylogeography
DeepLearning
Phylogeography
PopulationGenomics
4 months ago by
carlopecoraro2
★ 2.3k
0
votes
0
replies
225
views
News:
Metabarcoding in Microbial Ecology Workshop
Qiime2
R
Metabarcoding
Microbial-Ecology
4 months ago by
carlopecoraro2
★ 2.3k
1
vote
2
replies
349
views
News:
Gene Set Enrichment Analysis in R/Bioconductor
Gene-Set-Enrichment-Analysis
R
Cancer-Genomics
GSEA
4 months ago by
carlopecoraro2
★ 2.3k
0
votes
0
replies
222
views
News:
Analysis of RNA sequencing data with R/Bioconductor course.
Bioconductor
RNAseq
R
4 months ago by
carlopecoraro2
★ 2.3k
0
votes
0
replies
328
views
News:
Winter School in Bioinformatics
course
workshop
updated 3 months ago by
Ram
38k • written 4 months ago by
carlopecoraro2
★ 2.3k
1
vote
0
replies
297
views
News:
Introduction to Nextflow
Nextflow
updated 3 months ago by
Ram
38k • written 4 months ago by
carlopecoraro2
★ 2.3k
0
votes
2
replies
451
views
News:
Seascape Genomics in R
Genomics
Seascape
R
updated 3 months ago by
Ram
38k • written 4 months ago by
carlopecoraro2
★ 2.3k
0
votes
0
replies
214
views
News:
Bioinformatics courses in November
Bioconductor
Genomics
R
updated 3 months ago by
Ram
38k • written 5 months ago by
carlopecoraro2
★ 2.3k
0
votes
0
replies
281
views
News:
Flow cytometry analysis with R/Bioconductor course
Bioconductor
R
Cytometry
Flow
5 months ago by
carlopecoraro2
★ 2.3k
0
votes
0
replies
220
views
News:
course: RNA-seq analyses in non-model organisms
differential
Bioconductor
RNAseq
expression
non-model
organisms
analysis
R
5 months ago by
carlopecoraro2
★ 2.3k
0
votes
0
replies
245
views
News:
course - Developing R/Bioconductor packages for genomics
developing
package
Bioconductor
Genomics
R
5 months ago by
carlopecoraro2
★ 2.3k
2
votes
0
replies
260
views
News:
Four NCBI workshops in October (BLAST, Primer-BLAST, Metagenome analysis, Structures in iCn3D)
metagenomics
MagicBLAST
BLAST
NCBI
Primer-BLAST
5 months ago by
PeterC_NCBI
▴ 190
0
votes
0
replies
321
views
News:
course - Unix and shell scripting for bioinformatics
bash
Shell-scripting
Unix
updated 3 months ago by
Ram
38k • written 5 months ago by
carlopecoraro2
★ 2.3k
0
votes
0
replies
269
views
News:
course: Data Visualization in Python
Visualisation
Python
Data
updated 5 months ago by
GenoMax
126k • written 5 months ago by
carlopecoraro2
★ 2.3k
0
votes
0
replies
252
views
News:
Seascape Genomics in R course
Genomics
R
Seascape
Population
5 months ago by
carlopecoraro2
★ 2.3k
0
votes
0
replies
265
views
News:
Cellosaurus API
line
cell
API
5 months ago by
Amos Bairoch
▴ 110
0
votes
0
replies
269
views
News:
Cellosaurus release 43 is available
cellosaurus
cell-line
updated 3 months ago by
Ram
38k • written 5 months ago by
Amos Bairoch
▴ 110
0
votes
0
replies
223
views
News:
Genomics Webinar: Using Mastermind’s New ClinVar Integration to Accelerate Clinical Diagnoses
variant-interpretation
genomics
database
webinar
updated 3 months ago by
Ram
38k • written 6 months ago by
Kate
• 0
0
votes
0
replies
207
views
News:
course: Population Genomic Inference from Low-coverage Whole-genome Sequencing Data
whole-genome
genomics
population
low-coverage
sequencing
updated 6 months ago by
Jeremy Leipzig
21k • written 6 months ago by
carlopecoraro2
★ 2.3k
0
votes
0
replies
211
views
News:
:: FINAL CALL :: RNA-Seq Data Analysis Workshop (October 25 - 28, 2022 in Leipzig, Germany) - 2 seats left
RNA-Seq
workshop
transcriptomics
6 months ago by
David Langenberger
9.9k
0
votes
0
replies
196
views
News:
Getting the most out of R course - last call
ggplot2
R
tidyverse
6 months ago by
carlopecoraro2
★ 2.3k
0
votes
0
replies
272
views
News:
The NCTR Indel Calling from Oncopanel Sequencing Data Challenge Winners have been announced!
FDA-challenge
updated 3 months ago by
Ram
38k • written 6 months ago by
sarah_p
▴ 10
1
vote
0
replies
237
views
News:
Webinar (free) on Multimodal Single-Cell Data from winner of NeurIPS 2021
ATAC-seq
CITE-seq
scRNA-seq
6 months ago by
Alexander
▴ 70
1
vote
0
replies
246
views
News:
course Reproducible Analysis With R
R
Reproducibility
analysis
Data
6 months ago by
carlopecoraro2
★ 2.3k
0
votes
0
replies
271
views
News:
Virtual Genome Assembly workshop
Genome
Workshop
assembly
Virtual
6 months ago by
singh.vijender
▴ 70
10
votes
4
replies
619
views
News:
Good morning
good
morning
updated 6 months ago by
Istvan Albert
96k • written 6 months ago by
Kevin Blighe
84k
6
votes
7
replies
2.7k
views
News:
New in DiffBind: dba.plotProfile() - Peak profiles and profile heatmaps
DiffBind
ChIP-seq
deepTools
visualization
ATAC-seq
6 months ago by
Rory Stark
★ 1.7k
0
votes
0
replies
284
views
News:
Sex Chromosome Evolution course
course
Genomics
updated 3 months ago by
Ram
38k • written 6 months ago by
carlopecoraro2
★ 2.3k
0
votes
0
replies
238
views
News:
Online training - Data visualization in R with ggplot2
Visualization
ggplot2
R
Data
6 months ago by
carlopecoraro2
★ 2.3k
1
vote
0
replies
303
views
News:
Searching for people who can share experience (give free webinars/discuss) on multimodal single cell data
ATAC-seq
CITE-seq
scRNA-seq
6 months ago by
Alexander
▴ 70
1,000 results • Page
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Comment: Calculate RPKM
Answer: Best practices for data from CellXgene
Answer: How to adjust for multiple batches using Combat-Seq
Comment: Trying to install Roary with Conda results in error message
Comment: Trying to install Roary with Conda results in error message
Answer: samtools idxstats not removing ChrM
Comment: samtools idxstats not removing ChrM
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Comment: How can I determine the number of detected genes and detected transcripts/isofor
by
O.rka
▴ 650
That's what I was expecting but I got the opposite where there were more detected genes relative to the number of detected transcripts. Ki…
Comment: How can I determine the number of detected genes and detected transcripts/isofor
by
GenoMax
126k
You have this tagged as single cell so assuming that is what the data is referring to perhaps you should have been using `STARsolo` or `ale…
Comment: How to perform synteny alignments and plots only with a gene?
by
cmdcolin
★ 2.9k
if you want a 'genome browser' type approach, could try jbrowse 2, I am a developer of it. it has pairwise synteny visualization features l…
Comment: Calculate RPKM
by
Chris
▴ 70
Thank you so much! I figured it out a few hours ago. Could I ask you questions about ATAC-seq?
Comment: Calculate RPKM
by
seidel
10k
the easiest way is to probably take the numeric columns of your data frame and create a matrix. For instance, if column 1 is gene names, an…
Comment: Processing fastqs generated by inDrop protocol
by
Ram
38k
You've [cross-posted this on bioinformatics SE][1]. Don't do that - a bunch of people are on both forums are it is bad etiquette to waste v…
Comment: How to adjust for multiple batches using Combat-Seq
by
Ram
38k
Even if the batches were meaningfully distributed, OP doesn't need to use ComBat-seq for batch especially when they're trying to do DE - th…
Comment: Processing fastqs generated by inDrop protocol
by
benformatics
3.5k
i'm just guessing but there is an 8 bp read and a 16 bp read so my guess is those are the non-transcriptomic part (maybe a UMI + cell barco…
Answer: How to adjust for multiple batches using Combat-Seq
by
ATpoint
70k
Cancer is nested with batch, meaning batch 4 and cancer is the same thing. There is nothing you can correct for. This analysis is not meani…
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O.rka
▴ 650
I probably should have used salmon in the first place but wanted to knock-out-2-bird-with-one-stone in creating a wrapper for STAR for anot…
Comment: Pig Reference Genome
by
Joe
20k
If you are not sure which file you need, are you sure you're equipped to analyse the data it spits out, or that you are even doing the corr…
Comment: How can I determine the number of detected genes and detected transcripts/isofor
by
GenoMax
126k
Looks like you have already used `featureCounts` which is what would be recommended here. If you want to do transcript level estimations …
Comment: How to extract/find the actual names of the gene_IDs if they are not fully prese
by
GenoMax
126k
You could Convert your annotation file into Simple Annotation Format (SAF) that featureCounts understands. You will need to pull out `GENE_…
Comment: Trying to install Roary with Conda results in error message
by
Dunois
★ 2.3k
The issue is that a package installed via `conda` has dependencies (i.e., other packages it depends upon), and these need not all be mainta…
Comment: Pig Reference Genome
by
Ram
38k
Try every file. Or read bismark documentation until you're sure which one you need. I'd recommend the latter approach because it takes less…
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