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3
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2
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2.1k
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Tutorial: Continuing Education (Pipelines): Best blogs, Online Lectures, Workshops, etc..
conferences Workshops
updated 22 days ago by 39k • written 6.1 years ago by ▴ 100
11
votes
7
replies
7.3k
views
Tutorial: ClusterProfiler A software for functional enrichment of differentially expressed genes- A tutorial
clusterProfiler Software rna-seq
updated 15 days ago by 39k • written 2.2 years ago by ▴ 300
14
votes
9
replies
4.2k
views
6 follow
Tutorial: Setting up Aspera Connect (ascp) on Linux and macOS
aspera ascp
updated 29 days ago by • 0 • written 11 months ago by 72k
83
votes
34
replies
16k
views
22 follow
Tutorial: Enrichment Analysis, Clustering and Scoring with pathfindR
enrichment R pathway active-subnetwork
updated 7 days ago by • 0 • written 4.9 years ago by ★ 1.3k
2
votes
0
replies
1.2k
views
Tutorial: Free Book : Computational Biology of a cell signalling pathway using R
cell-signalling R Computational-Biology
updated 3 days ago by 39k • written 17 months ago by ▴ 20
78
votes
42
replies
29k
views
25 follow
Tutorial: Extract Total Non-Overlapping Exon Length Per Gene With Bioconductor
fpkm rna-seq bioconductor
updated 26 days ago by 39k • written 9.6 years ago by ★ 7.7k
238
votes
176
replies
85k
views
73 follow
Tutorial: Survival analysis of TCGA patients integrating gene expression (RNASeq) data
RNA-Seq Survival TCGA
updated 9 days ago by 39k • written 7.8 years ago by ★ 4.6k
45
votes
28
replies
7.3k
views
9 follow
Tutorial: How to Use Biostars, Part-I: Questions, Answers, Comments and Replies
documentation meta how-to
16 days ago by Ram 39k
59
votes
15
replies
12k
views
Tutorial: Which human reference genome should I use?
assembly genome alignment
updated 9 days ago by 39k • written 4.6 years ago by 16k
3
votes
4
replies
3.4k
views
Tutorial: Gene Set Enrichment Analysis on T-BioInfo
gene RNA-Seq
updated 8 days ago by 39k • written 4.6 years ago by ▴ 340
10
votes
4
replies
2.8k
views
Tutorial: CorLevelPlot - Visualise correlation results, e.g., clinical parameter correlations
correlation corlevelplot
updated 15 days ago by 39k • written 5.3 years ago by 85k
0
votes
0
replies
1.1k
views
Tutorial: In the cloud - Guide to running VerifyBamID to estimate DNA sample contamination
sequence cloud dna sequencing
updated 10 days ago by 39k • written 4.8 years ago by • 0
20
votes
2
replies
7.2k
views
Tutorial: Creating a karyotype plot with genes using karyoploteR
karyoploteR visualization R genome
updated 16 days ago by 39k • written 5.5 years ago by ★ 3.4k
2
votes
0
replies
1.2k
views
Tutorial: Principal Component Analysis (PCA ON T-BIOINFO)
RNA-Seq next-gen
updated 10 days ago by 39k • written 5.0 years ago by ▴ 340
9
votes
23
replies
8.6k
views
7 follow
Tutorial: OrthoMCL installation on Ubuntu Linux
ubuntu orthomcl mysql linux
updated 15 days ago by 39k • written 5.4 years ago by ▴ 310
1
vote
4
replies
3.0k
views
Tutorial: Applying machine learning to NGS transcriptomic data
next-gen RNA-Seq
updated 11 days ago by 39k • written 5.1 years ago by ▴ 340
3
votes
4
replies
4.0k
views
Tutorial: gencore: a tool to reduce sequencing noises by generating consensus reads
consensus OpenGene sequencing-noise
updated 11 days ago by 39k • written 5.1 years ago by ★ 2.4k
18
votes
2
replies
5.5k
views
Tutorial: Update kraken databases
database kraken k-mer python
updated 22 days ago by 39k • written 6.1 years ago by 5.2k
2
votes
0
replies
1.4k
views
Tutorial: Webinar: Extracting research evidence from publications
text-mining ontology pubmed
updated 14 days ago by 39k • written 5.3 years ago by ▴ 60
0
votes
0
replies
3.4k
views
Tutorial: SFA (Stochastic Frontier Analysis) STATA 14
R
updated 16 days ago by 39k • written 5.3 years ago by ▴ 10
0
votes
0
replies
1.4k
views
Tutorial: PLS SEM (Partial Least Square Sructural Equation Modeling) Analysis WarpPLS 6
R
updated 16 days ago by 39k • written 5.3 years ago by ▴ 10
3
votes
0
replies
2.1k
views
Tutorial: Deep Learning for Cancer Immunotherapy
keras tensorflow
updated 15 days ago by 39k • written 5.3 years ago by 21k
0
votes
0
replies
1.3k
views
Tutorial: MWD (Mackinnon, White And Davidson) In R
R
updated 16 days ago by 39k • written 5.3 years ago by ▴ 10
0
votes
0
replies
2.0k
views
Tutorial: Transforming (Transformation) Data LN, Log, SQRT In R Commander
R
updated 16 days ago by 39k • written 5.4 years ago by ▴ 10
0
votes
0
replies
3.4k
views
Tutorial: Park Test for Heteroskedasticity In R Commander
R Park-Test
updated 16 days ago by 39k • written 5.4 years ago by ▴ 10
0
votes
0
replies
7.6k
views
Tutorial: Multicollinearity VIF (Variance Inflation Factor) Analysis in Panel data EVIEWS 9
R eviews
updated 16 days ago by 39k • written 5.4 years ago by ▴ 10
1
vote
0
replies
1.3k
views
Tutorial: Fall 2017 Introduction to Human Genomics for Clinical Informaticists
genome
updated 15 days ago by 39k • written 5.4 years ago by ▴ 90
0
votes
1
reply
1.7k
views
Tutorial: Nonparametric Regression STATA 15
STATA-15 Nonparametric-Regression STATA
updated 16 days ago by 39k • written 5.4 years ago by ▴ 10
3
votes
3
replies
7.9k
views
Tutorial: High Speed Downloading of SRA, SAM and Fastq Files
fastq sam Aspera-Connect sra
updated 16 days ago by 39k • written 5.4 years ago by ▴ 100
2
votes
0
replies
6.5k
views
Tutorial: How to - Install Python packages in a virtual environment (virtualenv)
ubuntu cutadapt virtualenv python windows
updated 16 days ago by 39k • written 5.5 years ago by ▴ 310
0
votes
0
replies
2.6k
views
Tutorial: Autocorrelation With Breusch Godfrey Serial Correlation LM Test R Commander
LM-Test R Autocorrelation Breusch-Godfrey
updated 16 days ago by 39k • written 5.5 years ago by ▴ 10
0
votes
0
replies
2.8k
views
Tutorial: Normality Test For JB (Jarque Bera) Test R Commander
Jarque-Bera-Test R-Commander
updated 16 days ago by 39k • written 5.5 years ago by ▴ 10
0
votes
0
replies
1.2k
views
Tutorial: Data Panel In R Commander
R
updated 16 days ago by 39k • written 5.5 years ago by ▴ 10
10
votes
1
reply
7.7k
views
Tutorial: How to select reads with specific flag using samtools
next-gen-sequencing
updated 17 days ago by 39k • written 5.7 years ago by ▴ 110
1
vote
0
replies
1.8k
views
Tutorial: How to display Agilent CGH array in IGV
IGV CGH
updated 16 days ago by 39k • written 5.5 years ago by ★ 2.4k
2
votes
2
replies
7.8k
views
Tutorial: Use fastp to preprocess FASTQ data with unique molecular identifer (UMI) integrated
FASTQ UMI fastp
updated 16 days ago by 39k • written 5.5 years ago by ★ 2.4k
39
votes
6
replies
17k
views
Tutorial: Creating chromosome karyotype plot with R and ggplot2
ggplot2 R chromosome karyotype
updated 18 days ago by 39k • written 5.8 years ago by ★ 3.3k
15
votes
1
reply
6.4k
views
Tutorial: A compilation of conversion tools for BED, SAM/BAM, psl, pslx, blast tabular and blast xml
psl SAM blast BED
updated 16 days ago by 39k • written 5.6 years ago by ★ 3.0k
5
votes
5
replies
6.1k
views
Tutorial: use firehose_get to download TCGA data
tcga RNA-Seq
updated 16 days ago by 39k • written 5.6 years ago by ▴ 130
7
votes
1
reply
2.0k
views
Tutorial: A gentle introduction to biogo
sequence golang biogo
updated 17 days ago by 39k • written 5.6 years ago by ★ 1.7k
0
votes
1
reply
2.8k
views
Tutorial: Accessing sequences using batch entrez
genome
updated 17 days ago by 39k • written 5.6 years ago by • 0
5
votes
2
replies
2.8k
views
Tutorial: Get GC Content from UCSC with perl script (mysql)
myql ucsc gc-content perl
updated 22 days ago by 39k • written 6.1 years ago by ★ 9.3k
5
votes
0
replies
2.0k
views
Tutorial: Installing multiprocessor-capable MEME to work with a Slurm job scheduler environment
slurm meme parallel
updated 17 days ago by 39k • written 5.7 years ago by 35k
9
votes
9
replies
3.7k
views
Tutorial: Determine % of reference genome covered by aligned SAM/BAM
reference-coverage ngs
updated 17 days ago by 39k • written 5.7 years ago by 85k
11
votes
7
replies
13k
views
Tutorial: Removing rows with duplicate values based on 1 or more key values - linux awk
awk linux bash
updated 17 days ago by 39k • written 5.7 years ago by 85k
7
votes
2
replies
1.7k
views
Tutorial: Introduction to Human Genomics for Clinical Informaticists
genome
updated 18 days ago by 39k • written 5.8 years ago by ▴ 90
4
votes
1
reply
1.7k
views
Tutorial: One of the easy way to achieve read count and RPKM file
RNA-Seq
updated 18 days ago by 39k • written 5.8 years ago by ▴ 40
1
vote
0
replies
1.5k
views
Tutorial: Using Subversion to update /devel branch of Bioconductor package
bioconductor subversion
updated 18 days ago by 39k • written 5.8 years ago by ▴ 350
12
votes
11
replies
6.7k
views
Tutorial: How to upload your RNA-Seq data to NCBI Sequence Read Archive (SRA)
NCBI Bioproject SRA BioSample
updated 24 days ago by 39k • written 6.2 years ago by ★ 2.4k
9
votes
5
replies
2.0k
views
Tutorial: What is new in samtools release 1.5 [Solstice Release] (21st June 2017)
samtools
updated 19 days ago by 39k • written 5.9 years ago by 98k
59 results • Page 1 of 2
Recent Votes
A: Single end or paired end for variant calling
Comment: Single end or paired end for variant calling
Comment: how to look for interactions between different chromosomes
Bioinformatics data integration
Answer: Hiplot: a simple and user-friendly visualization platform for scientific data
Multiomics data preprocessing
Comment: Low mapping percentage
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Recent Replies
Comment: Random dataset and DESeq2 by LChart 2.6k
I don't think you've given enough detail about your approach (what's the data? are you correcting for covariates? how did you shuffle? how …
Answer: Network cross-validation by LChart 2.6k
What do you mean by "robust" in this case? Which of the following is closest to what you want to estimate: (1) Would I get a similar res…
Comment: I have one fasta file of a bacteria. Can i use to create a phylogenetic tree? by Mustafa • 0
Thank you so much ! will try them all !
Answer: I have one fasta file of a bacteria. Can i use to create a phylogenetic tree? by andres.firrincieli 3.3k
If the fasta file contains the genome sequence you can use the following: 1. GToTree (see example [here][1]) 2. [GTDB-tk][2] *de novo…
Comment: Low mapping percentage by Sib ▴ 40
Thank you for the reply @genomax . If there is not much I can do about the contamination at this stage, what is the benefit of knowing the…
Answer: integrate single cell RNA sequencing data by Hamid Ghaedi 2.9k
There are different approaches that you may choose to deal with batch correction. Harmony is one of those approaches that has been shown to…
Comment: What does canonical transcript mean in the context of VEP by Vincent Laufer ★ 2.9k
@curious - The only thing I have to add to @yokofakun 's precise answer is that, while you are considering and reading about Ensembl canoni…
Comment: Help with running ATAC using Encode pipeline by Chris ▴ 100
Thank you for the instruction! I see the beside json file we also have input file which I am confused. Because we have already defined the …
Comment: Comparing loci across catalogs by rycro_c • 0
Hi @Austin, Did you ever figure this out?
Comment: Low mapping percentage by Dave Carlson ★ 1.3k
I've been faced with similar issues in the past. Both option 1 and 2 seem useful. You can also treat your data as accidental metagenomic …
Comment: How to sort gff3 according to chromosome order? by Pierre Lindenbaum 154k
-s, --stable stabilize sort by disabling last-resort comparison
Comment: Low mapping percentage by GenoMax 129k
If you do have contamination (either from rRNA of same species or from true contaminant(s)) there is not much you can do about that at this…
Comment: Optimum setting for local blastp for ~10K sequences by GenoMax 129k
> Running the same sequence on the blast web server took 10 seconds Don't try to compare anything local with NCBI's web blast infrastruct…
Comment: how to Construct a Newick tree file from five large fasta files by Joe 21k
Yes, I know - but that doesn't answer the question. **What *kind* of phylogenetic tree?**
Comment: Optimum setting for local blastp for ~10K sequences by sodiumnitrate ▴ 20
Thank you for the explanation! I managed to get diamond to work, but I'm having trouble getting it to run faster than blast. For a single t…
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