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325 results • Page
2 of 7
Sort: Votes
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Views
Votes
Replies
43
votes
6
replies
12k
views
Tutorial:
Annotating TCGA MAFs with the latest Ensembl/Gencode transcripts
ensembl
maf
tcga
vcf
updated 6 months ago by
Ram
40k • written 9.7 years ago by
Cyriac Kandoth
6.0k
42
votes
2
replies
17k
views
Tutorial:
Sequencing Technology Review Papers
sequencing
papers
updated 7 months ago by
Ram
40k • written 11.1 years ago by
Istvan Albert
98k
42
votes
19
replies
7.4k
views
8 follow
Tutorial:
Designing Command-Line Interfaces (Clis) For Scientific Software
software
updated 7 months ago by
Ram
40k • written 10.6 years ago by
Daniel Standage
4.1k
40
votes
9
replies
11k
views
10 follow
Tutorial:
Resources for flow cytometry bioinformatics
single-cell
flow-cytometry
updated 6 months ago by
Ram
40k • written 9.5 years ago by
Ahill
★ 1.9k
39
votes
6
replies
18k
views
Tutorial:
Creating chromosome karyotype plot with R and ggplot2
ggplot2
R
chromosome
karyotype
updated 4 months ago by
Ram
40k • written 6.1 years ago by
steve
★ 3.3k
39
votes
8
replies
11k
views
10 follow
Tutorial:
Methylation Analysis Tutorial in R_part1
cancer
R
methylation
updated 6 months ago by
Ram
40k • written 3.0 years ago by
Hamid Ghaedi
3.0k
36
votes
5
replies
5.8k
views
Tutorial:
[Beginner] Introduction to bioinformatics file types
fastq
fasta
bed
SAM
updated 16 days ago by
gallardodiazmiriam
▴ 20 • written 8.2 years ago by
Luke Crichton
▴ 410
35
votes
17
replies
16k
views
12 follow
Tutorial:
Machine Learning For Cancer Classification - Part 3 - Predicting With A Random Forest Classifier
machine-learning
classification
updated 4 months ago by
GenoMax
134k • written 9.8 years ago by
Obi Griffith
20k
34
votes
15
replies
5.8k
views
6 follow
Tutorial:
How to do data cleaning for VCF genetic file
vcf
updated 6 months ago by
Ram
40k • written 4.3 years ago by
Shicheng Guo
★ 9.3k
34
votes
15
replies
19k
views
12 follow
Tutorial:
TCGA UUIDS to TCGA barcode (SampleID) in R
next-gen
GDC
R
TCGA
updated 6 months ago by
Ram
40k • written 7.0 years ago by
martinguerrerog89
▴ 310
33
votes
9
replies
30k
views
11 follow
Tutorial:
installing samtools with conda - overcoming two common errors
samtools
conda
updated 6 months ago by
Ram
40k • written 3.1 years ago by
lavinia.gordon
▴ 160
32
votes
4
replies
7.0k
views
Tutorial:
Fast LD computation from VCF files using tomahawk
ld
snp
vcf
vcftools
bcftools
updated 6 months ago by
Ram
40k • written 4.9 years ago by
firestar
★ 1.6k
31
votes
6
replies
11k
views
Tutorial:
A simple tutorial for a complex ComplexHeatmap
clustering
pam
arthritis
ComplexHeatmap
updated 6 months ago by
Ram
40k • written 3.3 years ago by
Kevin Blighe
86k
31
votes
12
replies
28k
views
7 follow
Tutorial:
So What Does The Sequence Duplication Rate Really Mean In A Fastqc Report
quality-control
fastqc
updated 6 months ago by
Ram
40k • written 9.9 years ago by
Istvan Albert
98k
31
votes
8
replies
10k
views
7 follow
Tutorial:
How To Create A Bioinformatics Pipeline Using Spotify !
python
pipeline
updated 6 months ago by
Ram
40k • written 9.5 years ago by
Rad
▴ 810
30
votes
14
replies
16k
views
8 follow
Tutorial:
Installation of the MuSiC suite on unsupported Linux distributions
genome-music
linux
smg
updated 7 months ago by
Ram
40k • written 10.6 years ago by
Cyriac Kandoth
6.0k
29
votes
5
replies
6.1k
views
Tutorial:
Gnu Parallel Tutorial
parallel
gnu-parallel
updated 6 months ago by
Ram
40k • written 10.0 years ago by
ole.tange
★ 4.3k
28
votes
4
replies
4.0k
views
Tutorial:
Modern Statistics for Modern Biology
statistics
updated 6 months ago by
Ram
40k • written 4.7 years ago by
Jean-Karim Heriche
26k
27
votes
10
replies
69k
views
9 follow
Tutorial:
Installing an updated R version (>=4.0) using conda
software-error
R
updated 6 months ago by
Ram
40k • written 2.5 years ago by
Nitin Narwade
★ 1.4k
26
votes
0
replies
2.3k
views
Tutorial:
Resources / databases for clinical interpretation of cancer variants
interpretation
cancer
annotation
variant
updated 6 months ago by
Ram
40k • written 3.9 years ago by
Malachi Griffith
19k
25
votes
15
replies
8.4k
views
8 follow
Tutorial:
Syllabus To Learn Bioinformatics From Online Video Resources
course
training
mooc
updated 7 months ago by
Ram
40k • written 10.7 years ago by
Medhat
9.7k
24
votes
4
replies
6.9k
views
Tutorial:
Using EnrichedHeatmap for visualization of NGS experiments
heatmap
chip-seq
atac-seq
EnrichedHeatmap
updated 6 months ago by
Ram
40k • written 4.1 years ago by
ATpoint
76k
23
votes
19
replies
6.1k
views
10 follow
Tutorial:
MutScan: Detect important mutations by scanning FastQ files directly
fastq
mutation
cancer
target
updated 5 months ago by
Ram
40k • written 7.0 years ago by
chen
★ 2.4k
22
votes
2
replies
5.8k
views
Tutorial:
Use a workflow management tool to manage your computational pipelines
workflow-management
snakemake
pipeline
updated 5 months ago by
Ram
40k • written 6.9 years ago by
Eric Lim
★ 2.1k
22
votes
1
reply
3.1k
views
Tutorial:
Introduction To R Course Materials Available
R
updated 8 months ago by
Ram
40k • written 11.4 years ago by
Sean Davis
26k
21
votes
10
replies
6.0k
views
Tutorial:
Finding the significance of the overlap between 2 or more gene sets using simulation in R.
tidyverse
gene
R
updated 6 months ago by
Ram
40k • written 3.1 years ago by
rpolicastro
12k
21
votes
9
replies
6.2k
views
8 follow
Tutorial:
Interactive Perl Learning
perl
updated 6 months ago by
Ram
40k • written 10.3 years ago by
Medhat
9.7k
20
votes
14
replies
3.6k
views
Tutorial:
Video-tutorials: How to get started using EaSeq for interactive ChIP-seq data visualization and exploration (Windows)
ChIP-Seq
visualization
Windows
EaSeq
updated 5 months ago by
Ram
40k • written 7.4 years ago by
Mads Lerdrup
▴ 460
20
votes
4
replies
2.4k
views
Tutorial:
Bash One-liners collection on Github
bash
linux
shell
updated 6 months ago by
Ram
40k • written 4.4 years ago by
nim.1111.ou
▴ 180
20
votes
5
replies
6.5k
views
Tutorial:
Analysis of single-cell RNA-seq data
single-cell
RNA-Seq
updated 5 months ago by
Ram
40k • written 7.2 years ago by
Geparada
★ 1.5k
20
votes
0
replies
8.5k
views
Tutorial:
Metagenomics Review Papers
metagenomics
papers
updated 7 months ago by
Ram
40k • written 11.1 years ago by
Istvan Albert
98k
20
votes
4
replies
14k
views
Tutorial:
How To Install A Specific Cdf Package For Use In Bioconductor
bioconductor
affymetrix
updated 7 months ago by
Ram
40k • written 10.5 years ago by
Obi Griffith
20k
20
votes
7
replies
6.0k
views
Tutorial:
Showing up and down regulated GO and pathway using enrichR and ggplot2
ggplot2
RNA-Seq
R
updated 6 months ago by
Ram
40k • written 4.9 years ago by
ahmad mousavi
▴ 760
20
votes
2
replies
7.6k
views
Tutorial:
Creating a karyotype plot with genes using karyoploteR
karyoploteR
visualization
R
genome
updated 4 months ago by
Ram
40k • written 5.8 years ago by
bernatgel
★ 3.4k
20
votes
4
replies
8.4k
views
Tutorial:
DE analysis by edgeR
RNA-Seq
R
edgeR
updated 5 months ago by
Ram
40k • written 7.0 years ago by
fi1d18
★ 4.2k
20
votes
6
replies
5.2k
views
Tutorial:
Open Targets and programmatic access
open-targets
disease
API
drug
updated 6 months ago by
Ram
40k • written 7.0 years ago by
Denise CS
★ 5.2k
19
votes
2
replies
3.2k
views
Tutorial:
Beginner's Handbook to Next Generation Sequencing
NGS
updated 4 months ago by
Ram
40k • written 6.5 years ago by
support
▴ 640
19
votes
4
replies
8.6k
views
Tutorial:
Rna Seq Experimental Design For Measuring Differential Gene Expression
RNA-seq
updated 7 months ago by
Ram
40k • written 10.6 years ago by
Istvan Albert
98k
18
votes
2
replies
5.7k
views
Tutorial:
Update kraken databases
database
kraken
k-mer
python
updated 4 months ago by
Ram
40k • written 6.4 years ago by
Sej Modha
5.2k
18
votes
13
replies
6.7k
views
9 follow
Tutorial:
Setting up Aspera Connect (ascp) on Linux and macOS
aspera
ascp
updated 10 weeks ago by
Michael
53k • written 15 months ago by
ATpoint
76k
18
votes
7
replies
5.7k
views
Tutorial:
scRNA-seq CITE-seq-count bioinformatics
CITE-seq-count
scRNA-seq
RNA-Seq
updated 9 weeks ago by
ATpoint
76k • written 3.5 years ago by
colindaven
5.5k
18
votes
40
replies
17k
views
16 follow
Tutorial:
Easy way to run easily orthoMCL (Copy & paste)
all-v-all
orthomcl
updated 6 months ago by
Ram
40k • written 7.2 years ago by
Esaie
▴ 170
18
votes
22
replies
8.0k
views
10 follow
Tutorial:
Create de novo repeat library
de-novo
repeat
annotation
updated 2 days ago by
evoecogen
▴ 20 • written 3.8 years ago by
Juke34
8.2k
17
votes
13
replies
1.9k
views
Tutorial:
Screen shots of text (please don't)!
meta
updated 4 months ago by
Ram
40k • written 6.5 years ago by
Michael
53k
16
votes
5
replies
8.7k
views
Tutorial:
Using The Biomart Perl Api For Simple Queries
api
perl
biomart
updated 7 months ago by
Ram
40k • written 11.0 years ago by
Obi Griffith
20k
16
votes
11
replies
14k
views
7 follow
Tutorial:
retrieve full TCGA datasets from cBioportal with R
TCGA
RNA-seq
data-retrieval
cBioportal
R
updated 6 months ago by
Ram
40k • written 6.9 years ago by
TriS
★ 4.7k
16
votes
6
replies
6.1k
views
Tutorial:
How to make your snakefiles self-documenting
snakemake
updated 5 months ago by
Ram
40k • written 6.9 years ago by
Botond Sipos
★ 1.7k
16
votes
7
replies
14k
views
Tutorial:
Integrating VDJ sequencing data with Seurat
VDJ
Seurat
sc-RNAseq
clonotyping
updated 6 months ago by
Ram
40k • written 4.3 years ago by
atakanekiz
▴ 310
16
votes
11
replies
7.7k
views
Tutorial:
How to Use Biostars, Part II: Post types, Deleting, (Un)Subscribing, Linking and Bookmarking
meta
how-to
documentation
6 months ago by
Ram
40k
16
votes
0
replies
12k
views
Tutorial:
Workshop - Analysis Of Next Generation Sequencing Data
RNA-seq
updated 7 months ago by
Ram
40k • written 11.5 years ago by
David Langenberger
10k
325 results • Page
2 of 7
Recent Votes
Comment: Assistance with Fungal Genome Annotation Using Maker and BLAST
Seurat CellCycleScoring – confused about the proper order of operations when using SCTransform
Comment: Hisat2 index and alignment question
Comment: Dotplot error: subscript out of bound
Comment: Dotplot : how to self-define the range of legend
Answer: Dotplot : how to self-define the range of legend
Convert SAM to BAM
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Recent Replies
Comment: Assistance with Fungal Genome Annotation Using Maker and BLAST
by
Edoardo
• 0
I have 13,576 proteins in my file. I tried on a small set of 3 proteins and it worked fine!
Comment: Assistance with Fungal Genome Annotation Using Maker and BLAST
by
Mensur Dlakic
★ 24k
It should be faster, though you are not telling us how many proteins are in your query file. I suggest you use as many threads as availabl…
Comment: Hisat2 index and alignment question
by
Athena
• 0
That worked! Thank you. Didn't know that was an option... now I know.
Comment: Assistance with Fungal Genome Annotation Using Maker and BLAST
by
Edoardo
• 0
I ran blastp with the following command: blastp \ -db /path/to/Annotation_db/uniprot_fungi.fasta \ -query MYGEN.maker.output/…
Comment: Hisat2 index and alignment question
by
Athena
• 0
Pathway of my reference genome ![reference index pathway][1] when I tried running this command `hisat2 -p 8 -x /path/to/musculus_index…
Comment: Dotplot : how to self-define the range of legend
by
Xuhao
• 0
Thanks for your kind help.
Comment: Dotplot : how to self-define the range of legend
by
zau saa
▴ 50
add `breaks = c(-1, -0.5, 0, 0.5, 1)` to `scale_colour_gradientn()`
Comment: Dotplot : how to self-define the range of legend
by
Xuhao
• 0
It works!!! Thanks so much. Can I ask one more question? How to change the "average expression" scale into "-1, -0.5, 0, 0.5, 1"?
Comment: Low Alignment rate
by
dsull
★ 4.7k
Did you run FASTQC to check the quality of your sequencing samples? Otherwise, try taking some the reads that failed to align, and run the…
Comment: Integrated Seurat object change name of the two conditions
by
Amitm
★ 2.2k
Hi, See this [prev. post][1] where I contributed to, on accessing the meta data slot in a seurat object. There is more than one way. [1…
Comment: scRNAseq Differential expression analysis
by
jared.andrews07
★ 15k
I appreciate this statement and it largely mirrors my own. Lior sometimes makes extremely salient and important points. Other times, he's t…
Comment: Highly inflated p-values in GWAS by regenie
by
cwwong13
▴ 20
Thanks @4galaxy77 . The first 10 PCs were included in the calculation of the trait residuals, but still results were highly inflated.
Comment: Hisat2 index and alignment question
by
Istvan Albert
98k
the most logical and simple explanation is that most likely the path to index is specified incorrectly show us the paths with say `ls` the…
Comment: How to change from gene_id to GeneID/EntrezID using R
by
Kevin Blighe
86k
It would have been good if you had mentioned the species in your opening question. Regarding the fact that it may not be related to Ensembl…
Comment: How to change from gene_id to GeneID/EntrezID using R
by
Nicolas
• 0
Thank you for your help but my data are not related to ENSMBL and im not working with any model organism that allow me to use the org packa…
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