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384 results • Page 4 of 8
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10
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3
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4.3k
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Tutorial: Video: Alternative Splicing and Primer Design
RNA-Seq IGB
updated 10 months ago by 41k • written 9.2 years ago by ▴ 860
0
votes
3
replies
51k
views
Tutorial: Installation VMD on LINUX_64
gromacs VMD
updated 8 months ago by 41k • written 7.5 years ago by ▴ 10
11
votes
3
replies
1.3k
views
Tutorial: Creating great documentation for bioinformatics software
Software-Documentation
updated 8 months ago by 41k • written 7.4 years ago by 7.1k
9
votes
3
replies
4.1k
views
Tutorial: Ht Sequence Analysis With R And Bioconductor By The Bioinformatics Center At Uc Riverside
bioconductor
updated 9 months ago by 41k • written 11.3 years ago by 99k
2
votes
3
replies
1.9k
views
Tutorial: Help demonstrate reproducibility in bioinformatics with the GA4GH's tool execution Challenge
GA4GH Docker CWL Rabix
updated 7 months ago by 41k • written 6.8 years ago by ▴ 20
5
votes
3
replies
4.1k
views
Tutorial: Chip Seq Review Papers
chip-seq
updated 9 months ago by 41k • written 11.0 years ago by ▴ 80
4
votes
3
replies
4.4k
views
Tutorial: How to get full taxonomy classification using taxize and myTAI
taxonomy R
updated 8 months ago by 41k • written 5.7 years ago by ★ 3.9k
13
votes
3
replies
14k
views
Tutorial: Plotting the coverage and depth (Y-axis) statistics of a bam file along the genome (X-axis), using Samtools, awk and R.
genome plot coverage samtools
updated 3 months ago by ▴ 20 • written 6.7 years ago by ★ 1.6k
3
votes
3
replies
8.4k
views
Tutorial: High Speed Downloading of SRA, SAM and Fastq Files
fastq sam Aspera-Connect sra
updated 6 months ago by 41k • written 6.0 years ago by ▴ 100
2
votes
3
replies
2.6k
views
Tutorial: It's about the journey, and not the destination
R network
updated 7 months ago by 41k • written 6.7 years ago by ★ 1.2k
5
votes
3
replies
5.1k
views
Tutorial: bam2rpkm by bedtools
bam RNA-Seq bedtools rpkm
updated 8 months ago by • 0 • written 6.1 years ago by ▴ 130
51
votes
3
replies
22k
views
Tutorial: Sam File Format - Lesser Known Tips And Tricks
sam
updated 9 months ago by 41k • written 10.9 years ago by ▴ 300
7
votes
3
replies
2.0k
views
Tutorial: Automated dbSNP lookup by rsID position, plus genome build liftover
rsid hg19 liftover hg38 dbsnp
updated 8 months ago by ▴ 110 • written 16 months ago by 86k
44
votes
3
replies
12k
views
Tutorial: A Wet-Lab Guide to 'what I wish I had known' for Computational Biology
bioinformatics computational-biology
updated 8 months ago by 41k • written 7.7 years ago by ★ 3.2k
13
votes
3
replies
5.0k
views
Tutorial: Video: Visualization of whole genome DNA methylation data in IGB
Bismark BS-Seq RNA-Seq IGB
updated 18 months ago by 41k • written 8.7 years ago by ▴ 860
8
votes
3
replies
2.6k
views
Tutorial: Free online interactive Ensembl training
ensembl training genome
updated 17 months ago by 41k • written 7.8 years ago by 23k
7
votes
2
replies
3.5k
views
Tutorial: List Of Tools For Mapping High-Throughput Sequencing Data (2012)
next-gen mapping
updated 9 months ago by 41k • written 11.2 years ago by 11k
6
votes
2
replies
1.5k
views
Tutorial: GSE28955 - Agilent-016436 Human miRNA Microarray 1.0
limma GPL6955 Microarray miRNA Agilent
2.3 years ago by Kevin Blighe 86k
3
votes
2
replies
8.5k
views
Tutorial: Use fastp to preprocess FASTQ data with unique molecular identifer (UMI) integrated
FASTQ UMI fastp
updated 6 months ago by 41k • written 6.0 years ago by ★ 2.5k
15
votes
2
replies
2.9k
views
Tutorial: Introduction to bedtools.
bedtools
updated 9 months ago by 41k • written 9.1 years ago by 12k
6
votes
2
replies
2.6k
views
Tutorial: Tutorial Bioinformatics Static Website
website
updated 9 months ago by 41k • written 9.9 years ago by ▴ 610
6
votes
2
replies
3.7k
views
Tutorial: How to extract fastq files from SRA data that contains both paired and unpaired reads
fastq-dump sra
updated 8 months ago by 41k • written 7.7 years ago by ▴ 840
3
votes
2
replies
3.7k
views
Tutorial: Galaxy Tutorial on ChIP-seq
galaxy ChIP-Seq
updated 7 months ago by 41k • written 6.7 years ago by ▴ 30
0
votes
2
replies
2.3k
views
Tutorial: COURSE: NGS variant analysis and interpretation for translational research
CNIO course translational
updated 8 months ago by 41k • written 7.3 years ago by ▴ 190
9
votes
2
replies
5.3k
views
Tutorial: From Data import to Normalization in Microarray Analysis using in R (Part I)
gene R
updated 8 months ago by 41k • written 7.5 years ago by ▴ 140
15
votes
2
replies
1.9k
views
Tutorial: Germline variant calling pipeline using Snakemake
snakemake GATK germline_variant_calling
updated 14 months ago by ▴ 820 • written 2.2 years ago by ▴ 280
42
votes
2
replies
18k
views
Tutorial: Sequencing Technology Review Papers
sequencing papers
updated 9 months ago by 41k • written 11.3 years ago by 99k
0
votes
2
replies
2.5k
views
Tutorial: Webinar on 'An integrated RNA and DNA approach to unravel genetic regulation in cancer' on 25 Feb
SNP cancer gene-regulation multiomics rna-seq
updated 20 months ago by 41k • written 8.8 years ago by ▴ 70
5
votes
2
replies
2.2k
views
Tutorial: NCBI submissions: SRA and TSA
NCBI TSA SRA RNA-Seq
updated 8 months ago by 41k • written 5.0 years ago by ▴ 50
60
votes
2
replies
7.2k
views
Tutorial: Table Of Contents To All Review Paper Compilations On Biostar
papers
updated 9 months ago by 41k • written 11.3 years ago by 99k
2
votes
2
replies
1.9k
views
Tutorial: Human mitochondrial DNA annotation in SnpEff
chrMT SNP snpEff
updated 8 months ago by 41k • written 3.4 years ago by 3.2k
45
votes
2
replies
36k
views
Tutorial: Mapping Reads With Bwa And Bowtie
bowtie bwa
updated 9 months ago by 41k • written 11.7 years ago by ▴ 540
12
votes
2
replies
1.2k
views
Tutorial: Factors in R - How do they work, and how did I break my data?
R
updated 8 months ago by 41k • written 2.7 years ago by 12k
85
votes
2
replies
57k
views
6 follow
Tutorial: How To Ask Good Questions On Technical And Scientific Forums
how-to
updated 9 months ago by 41k • written 10.4 years ago by 11k
1
vote
2
replies
1.3k
views
Tutorial: ViennaRNA package installation in Windows
windows rna mfold viennarna
updated 5 months ago by 41k • written 14 months ago by ▴ 20
4
votes
2
replies
2.3k
views
Tutorial: Apply beagle5.0 to make imputation and phasing under CentOS and PBS
beagle5.0 beagle
updated 8 months ago by 41k • written 4.5 years ago by ★ 9.3k
5
votes
2
replies
4.4k
views
Tutorial: Yes .. BBMap can do that! - Part III clumpify (mark (and dedupe) duplicates without alignment), mutate (create mutant genomes) and other miscellaneou…
bbmap
5 days ago by GenoMax 136k
14
votes
2
replies
6.3k
views
Tutorial: ChIP-seq analysis tutorial
ChIP-Seq
updated 8 months ago by 41k • written 8.3 years ago by ★ 3.6k
20
votes
2
replies
7.8k
views
Tutorial: Creating a karyotype plot with genes using karyoploteR
karyoploteR visualization R genome
updated 6 months ago by 41k • written 6.0 years ago by ★ 3.4k
4
votes
2
replies
1.9k
views
Tutorial: Prediction of Ribosomal RNA Genes Using RNAmmer Software
Annotation rRNA RNAmmer Genome
4 months ago by Dr.Animo ▴ 80
3
votes
2
replies
2.4k
views
Tutorial: Running fastq_screen on your data
fastqscreen
20 months ago by rohitsatyam102 ▴ 780
5
votes
2
replies
2.2k
views
Tutorial: Using Bedtools Closest (closestBed) to make distance histograms of protein binding frequency near all types of pre-RNA junctions (e.g. exon-intron an…
preRNA closestBed bedtools-closest bedtools
updated 8 months ago by 41k • written 4.9 years ago by ▴ 10
5
votes
2
replies
722
views
Tutorial: Updated List of Unix tutorials 2023
Unix
updated 3 months ago by 41k • written 3 months ago by ★ 2.4k
19
votes
2
replies
3.3k
views
Tutorial: Beginner's Handbook to Next Generation Sequencing
NGS
updated 7 months ago by 41k • written 6.7 years ago by ▴ 640
7
votes
2
replies
1.6k
views
Tutorial: A tale of two heatmap function
clustering heatmap
updated 8 months ago by 41k • written 7.2 years ago by ★ 3.6k
22
votes
2
replies
5.8k
views
Tutorial: Use a workflow management tool to manage your computational pipelines
workflow-management snakemake pipeline
updated 8 months ago by 41k • written 7.1 years ago by ★ 2.1k
15
votes
2
replies
3.6k
views
Tutorial: Methylation Analysis Tutorial in R_part2
cancer methylation RNA-Seq R
updated 8 months ago by 41k • written 3.2 years ago by 3.1k
3
votes
2
replies
675
views
Tutorial: How to use UCSC genome browser to check the transcription factor binding at your favorite gene
UCSC transcription factor ChIP-seq
4 months ago by Ming Tommy Tang ★ 3.6k
14
votes
2
replies
2.3k
views
Tutorial: Exploring OpenSNP - an RMarkdown report on crowdsourced genotypes and phenotypes
SNP R
updated 8 months ago by 41k • written 7.7 years ago by 22k
4
votes
2
replies
3.5k
views
Tutorial: Introduce OpenGene: an open source library for processing NGS data
NGS sequencing Julia OpenGene
updated 8 months ago by 41k • written 7.8 years ago by ★ 2.5k
384 results • Page 4 of 8
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Answer: 1000 genomes data?
Answer: General question about clustering in scRNAseq
Answer: General question about clustering in scRNAseq
A: Cluster sub-set analysis using Seurat
A: Cluster sub-set analysis using Seurat
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Recent Replies
Comment: How to avoid missannotated GO terms? by Dr.Animo ▴ 80
These kind of missannotations are assigned to multiple plant proteins except few like Arabidopsis thaliana and Zea maize. The problem is if…
Answer: SQL request from NCBI metadata and stat_analysis tables by zorbax ▴ 600
I think what you are looking for is the LEFT JOIN approach, where you can select a specific phylum. Have you tried this (next you should or…
Comment: Convert NCBI Downloaded files to ANNOVAR format by Ram 41k
You may also find tools such as vcfanno and bcftools easier to work with, if you don't want to spend too much time reformatting dictionary …
Comment: Convert NCBI Downloaded files to ANNOVAR format by robert • 0
Ok I guess I got confused because there is support for, for example gff3-solid, but not directly gff files. I will have a look at VEP, but …
Comment: How to perform quality control for sex when there are no variants after threshol by kl ▴ 10
I am trying with PLINK --check sex. Would an option be to merge my data with 1000 genomes European allele frequencies and redo the threshol…
Comment: Convert NCBI Downloaded files to ANNOVAR format by Ram 41k
The documentation is clear on this: `convert2annovar.pl` is used to convert input (genotype) files to ANNOVAR format. It is not used on dic…
Comment: How to perform quality control for sex when there are no variants after threshol by Ram 41k
The simple answer is you can't. Also, is there a reason why your title and your post body have the same content? Use a concise title and el…
Comment: Differential expression using Bowtie2 by ATpoint 78k
You cannot just randomly pull data from NCBI and then quantitatively compare them. RNA-seq is inherently a relative measure and quantitativ…
Comment: how to remove multiple columns from a file in R by Ram 41k
Accept their answer and then add your own and accept that as well.
Comment: how to remove multiple columns from a file in R by Ram 41k
Please stop asking basic R/programming questions and use Google to learn the underlying concepts. A simple search is the way to start: http…
Answer: get gene name from rsID by Ram 41k
Not all variants fall in coding regions. `rs2873296` for example is `NC_000001.10:g.21721038A>G`, which is in a non-coding region.
Comment: Differential expression using Bowtie2 by 8d8fc19e • 0
NCBI's Sequence Read Archive gives me the transcriptome of an organ (the RNA-seq data) which can be downloaded either as a .fasta or .fastq…
Comment: Differential expression using Bowtie2 by ATpoint 78k
Which will be obtained from NCBI...what does that mean, and which data do you have?
Comment: fgsea leading edge genes by ATpoint 78k
Just check the rank of these genes in the ranked data that were input to fgsea, then you know.
Answer: fgsea leading edge genes by Yuri ★ 1.6k
I asked the same question myself. I looked at the code of `calcGseaStat` function in `fgsea` package, and it appears that leading edge gene…
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