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Tutorial: Video: Intro to All New Features in IGB 8.2
R paired-end IGB
updated 2.2 years ago by 43k • written 9.4 years ago by ▴ 860
3
votes
0
replies
3.6k
views
Tutorial: Video Tutorial On Conducting Whole-Exome Sequencing Research
exome-sequencing
updated 14 months ago by 43k • written 10.9 years ago by 9.7k
3
votes
4
replies
3.6k
views
Tutorial: Gene Set Enrichment Analysis on T-BioInfo
gene RNA-Seq
updated 11 months ago by 43k • written 5.5 years ago by ▴ 340
6
votes
0
replies
3.6k
views
Tutorial: How to predict genes using a two-pass (iterative) MAKER2 workflow
Assembly
updated 14 months ago by 43k • written 10.0 years ago by 8.5k
0
votes
0
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3.6k
views
Tutorial: SFA (Stochastic Frontier Analysis) STATA 14
R
updated 12 months ago by 43k • written 6.3 years ago by ▴ 10
4
votes
2
replies
3.6k
views
Tutorial: Introduce OpenGene: an open source library for processing NGS data
NGS sequencing Julia OpenGene
updated 14 months ago by 43k • written 8.2 years ago by ★ 2.5k
7
votes
2
replies
3.6k
views
Tutorial: List Of Tools For Mapping High-Throughput Sequencing Data (2012)
next-gen mapping
updated 14 months ago by 43k • written 11.6 years ago by 11k
1
vote
4
replies
3.5k
views
Tutorial: How to install C++ compilers/make from GNU for Gromacs?
Gromacs Cpp-compilers GNU
updated 13 months ago by 43k • written 7.9 years ago by ▴ 10
10
votes
2
replies
3.5k
views
Tutorial: How to find PubMed records where you were author (member) as part of a consortium
pubmed
updated 21 months ago by 43k • written 8.5 years ago by 20k
3
votes
1
reply
3.4k
views
Tutorial: Affymetrix HTA 2.0 id conversion
biomart HTA affymetrix Affymetrix 2.0
updated 3 months ago by ▴ 120 • written 2.8 years ago by 88k
7
votes
8
replies
3.4k
views
Tutorial: Determine if a transcription factor is bound with CENTIPEDE
ChIP-Seq transcription-factor DNase-Seq CENTIPEDE
updated 17 months ago by 43k • written 8.9 years ago by ★ 2.3k
20
votes
2
replies
3.4k
views
Tutorial: Beginner's Handbook to Next Generation Sequencing
NGS
updated 12 months ago by 43k • written 7.1 years ago by ▴ 650
1
vote
4
replies
3.4k
views
Tutorial: Applying machine learning to NGS transcriptomic data
next-gen RNA-Seq
updated 11 months ago by 43k • written 6.0 years ago by ▴ 340
1
vote
2
replies
3.3k
views
Tutorial: Standalone BLAST error: UnexpectedTagClassByte
software-error blast
updated 19 months ago by 43k • written 8.8 years ago by ▴ 10
5
votes
0
replies
3.3k
views
Tutorial: How to run CWL with Nextflow
cwl nextflow
updated 14 months ago by 43k • written 4.2 years ago by ★ 3.5k
2
votes
0
replies
3.3k
views
Tutorial: use the tool slicer to split big files (like FASTQ) to smaller files for parallel processing
opengene slicer fastq splitter
updated 11 months ago by 43k • written 6.6 years ago by ★ 2.5k
1
vote
3
replies
3.2k
views
Tutorial: resolving error of sspace_standard
software-error Assembly
updated 13 months ago by 43k • written 7.7 years ago by ▴ 300
4
votes
1
reply
3.2k
views
Tutorial: Embo Practical Course On Analysis Of High-Throughput Sequencing Data
sequencing
updated 14 months ago by 43k • written 12.0 years ago by ▴ 360
15
votes
1
reply
3.2k
views
Tutorial: Current Topics in Genome Analysis 2016 (collection of educational lectures)
genomics training lectures workshop
updated 13 months ago by 43k • written 8.0 years ago by 20k
22
votes
1
reply
3.2k
views
Tutorial: Introduction To R Course Materials Available
R
updated 16 months ago by 43k • written 12.1 years ago by 26k
2
votes
0
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3.2k
views
Tutorial: How to read multiple matrices from GEO into R and make multiple Seurat objects and merge them into a single object.
unix Seurat single-cell rstats
updated 10 months ago by 43k • written 10 months ago by ★ 3.9k
6
votes
0
replies
3.2k
views
Tutorial: Uc Riverside Bioinformatics Manuals
computing-manuals
updated 14 months ago by 43k • written 12.1 years ago by 26k
2
votes
6
replies
3.2k
views
Tutorial: Rembrandt Glioma Data Analysis (PART I) - Are Gender specific genes related to cancer ?
gene R Rembrandt
updated 13 months ago by 43k • written 7.8 years ago by ▴ 140
2
votes
1
reply
3.2k
views
Tutorial: How to extract and filter SNP data from the genotyping-by-sequencing (GBS) data in vcf format using bcftools
bcftools SNP-Filtering VCF
updated 14 months ago by 43k • written 4.2 years ago by ▴ 10
0
votes
1
reply
3.2k
views
Tutorial: Accessing sequences using batch entrez
genome
updated 12 months ago by 43k • written 6.6 years ago by • 0
8
votes
17
replies
3.2k
views
Tutorial: Simple approach to RNA-seq (T-Bioinfo platform)
alignment next-gen-sequencing RNA-seq
updated 20 months ago by 43k • written 8.6 years ago by ▴ 340
5
votes
2
replies
3.1k
views
Tutorial: Get GC Content from UCSC with perl script (mysql)
myql ucsc gc-content perl
updated 12 months ago by 43k • written 7.1 years ago by ★ 9.4k
14
votes
1
reply
3.1k
views
Tutorial: PCR Primer or Primer+Probe design
pcr probe rt-pcr qpcr primer
updated 2.9 years ago by ★ 16k • written 2.9 years ago by 88k
0
votes
0
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3.1k
views
Tutorial: Normality Test For JB (Jarque Bera) Test R Commander
Jarque-Bera-Test R-Commander
updated 12 months ago by 43k • written 6.4 years ago by ▴ 10
15
votes
2
replies
3.1k
views
Tutorial: Introduction to bedtools.
bedtools
updated 14 months ago by 43k • written 9.5 years ago by 12k
1
vote
0
replies
3.1k
views
Tutorial: Canadian Bioinformatics Workshops 2016 Series
Assembly SNP RNA-Seq ChIP-Seq alignment
updated 22 months ago by 43k • written 8.3 years ago by ▴ 30
7
votes
0
replies
3.0k
views
Tutorial: On the concept of constant or intercept used in Differential Expression (DE) analysis
regression limma DESeq2
updated 13 months ago by 43k • written 8.0 years ago by ★ 5.1k
2
votes
1
reply
3.0k
views
Tutorial: Scripting for Biology - Online Virtual Classroom-based Module
perl python GO class
updated 19 months ago by 43k • written 8.7 years ago by ★ 1.1k
6
votes
1
reply
3.0k
views
Tutorial: Practical Guidelines for the Comprehensive Analysis of ChIP-seq Data
ChIP-Seq peak-calling sequencing
updated 14 months ago by 43k • written 10.1 years ago by ▴ 220
12
votes
17
replies
3.0k
views
Tutorial: How to find the mapping percentages for data deposited in the Zaire ebolavirus bioproject from the 2014 outbreak
ebola bwa
updated 16 months ago by 43k • written 8.9 years ago by 100k
0
votes
1
reply
3.0k
views
Tutorial: Getting the lineage of an organism from NCBI taxonomy data
biosql python taxonomy
updated 14 months ago by 43k • written 5.8 years ago by ▴ 320
7
votes
3
replies
2.9k
views
Tutorial: Prediction of Ribosomal RNA Genes Using RNAmmer Software
Annotation rRNA RNAmmer Genome
updated 25 days ago by 6.4k • written 16 months ago by ▴ 130
4
votes
2
replies
2.9k
views
Tutorial: Building mosdepth on macOS
nim mosdepth
updated 8 months ago by 142k • written 4.0 years ago by 82k
3
votes
2
replies
2.9k
views
Tutorial: Running fastq_screen on your data
fastqscreen
2.2 years ago by rohitsatyam102 ▴ 860
3
votes
3
replies
2.9k
views
Tutorial: Generating count matrix for STAR counts in GDC v32.0 for RNA-Seq
GDC TCGABiolinks STAR
updated 15 months ago by 43k • written 2.1 years ago by ★ 4.3k
0
votes
0
replies
2.9k
views
Tutorial: Autocorrelation With Breusch Godfrey Serial Correlation LM Test R Commander
LM-Test R Autocorrelation Breusch-Godfrey
updated 12 months ago by 43k • written 6.4 years ago by ▴ 10
8
votes
3
replies
2.8k
views
Tutorial: Free online interactive Ensembl training
ensembl training genome
updated 22 months ago by 43k • written 8.2 years ago by 23k
8
votes
0
replies
2.8k
views
Tutorial: Pipes in R: An introduction and some advanced tips and tricks.
R
3.1 years ago by rpolicastro 13k
2
votes
1
reply
2.7k
views
Tutorial: Converting TSV file to VCF
vcf preprocessing frequency
updated 16 months ago by 161k • written 16 months ago by ★ 2.1k
12
votes
0
replies
2.7k
views
Tutorial: Long versus wide data for plotting genomics data in R.
ggplot2 tidyverse data.table R
updated 14 months ago by 43k • written 3.7 years ago by 13k
0
votes
1
reply
2.7k
views
Tutorial: Clustering and results Display from PART II (PART III) - MeV software version
gene R
updated 13 months ago by 43k • written 7.9 years ago by ▴ 140
1
vote
0
replies
2.7k
views
Tutorial: How to auto-annotate sequences with the Genome Compiler service.
RNA-Seq genome sequence blast
updated 21 months ago by 43k • written 8.5 years ago by ▴ 40
6
votes
2
replies
2.7k
views
Tutorial: Tutorial Bioinformatics Static Website
website
updated 14 months ago by 43k • written 10.3 years ago by ▴ 610
2
votes
3
replies
2.7k
views
Tutorial: It's about the journey, and not the destination
R network
updated 12 months ago by 43k • written 7.1 years ago by ★ 1.2k
3
votes
2
replies
2.7k
views
Tutorial: Continuing Education (Pipelines): Best blogs, Online Lectures, Workshops, etc..
conferences Workshops
updated 12 months ago by 43k • written 7.0 years ago by ▴ 100
412 results • Page 5 of 9
Recent Votes
Comment: Genome Visualization Tools
Answer: RSeQC : infer_experiment.py Error: Could not retrieve index file
A: Best de novo assembler for insect genome ?
Comment: sci-RNA-seq
The Biostar Herald for Monday, May 13, 2024
Answer: Finding variants within a subset of a BAM file
Answer: Extracting only 4-fold degenerate sites from gene sequences/alignments?
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Recent Replies
Comment: Genome Visualization Tools by dlera.lozano • 0
Thank you so much
Answer: Doubt about the process of annotation, detection, identification and classificat by Mensur Dlakic ★ 27k
Depends on the context. `TE detection` and `TE identification` could mean the same thing if they refer to presence/absence of TEs. `TE iden…
Comment: featureCounts output summary assigned value higher than uniquely mapped reads fr by Ram 43k
Please accept your own answer to mark the post as solved.
Comment: RSeQC : infer_experiment.py Error: Could not retrieve index file by Ram 43k
A small educational note: if an answer was helpful, you should upvote it; if the answer resolved your question, you should mark it as accep…
Comment: RSeQC : infer_experiment.py Error: Could not retrieve index file by Prawesh • 0
thanks, it's working now.
Comment: Genome Visualization Tools by GenoMax 142k
@cmdcolin has a great list here: https://github.com/cmdcolin/awesome-genome-visualization
Answer: RSeQC : infer_experiment.py Error: Could not retrieve index file by Trivas ★ 1.8k
You need to have indexed your bam/sam file using `samtools index`
Answer: Using ggplotly in R by jared.andrews07 ★ 16k
The simple answer is to plot it natively with plotly rather than use `ggplotly`. See [this stackoverflow answer](https://stackoverflow.com/…
Comment: Why does assigning genes with biomart give me different values than using a tran by GenoMax 142k
According to HUGO there is only one [**ZSCAN2 gene**][1] and it points to the first Ensembl gene ID (ENSG00000176371). Ensembl is annotatin…
Answer: RNAseq RNA content by noodle ▴ 580
There are many tools for this. I recommend [gatk (picard) CollectRnaSeqMetrics][1] or alternatively [RSeQC][2] and then run [multiqc][3…
Comment: Where to get the following bed file? by wyuan37 • 0
Hi, I emailed them and did get the bed file! Thank you so much.
Comment: Where to get the following bed file? by wyuan37 • 0
Thanks! Super helpful.
Answer: Post-imputation QC for input into GWAS analyses by LauferVA 4.2k
1. Imputation algorithms will output log files indicating, among other things, accuracy of imputation. We can't comment on specifics as we …
Comment: Using Cutadapt to trim adapters from paired-end small RNA sequence data by GenoMax 142k
You can simply ignore read 2. It is not adding any information since your small RNA's are going to be small and were completely sequenced b…
Comment: Overlapping Ranges within Granges object by ntsopoul ▴ 60
does this work with a single .bed file?
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