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412 results • Page 6 of 9
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Tutorial: How to get full taxonomy classification using taxize and myTAI
taxonomy R
updated 14 months ago by 44k • written 6.1 years ago by ★ 4.0k
4
votes
0
replies
2.3k
views
Tutorial: Exploring Encode Data In The Ucsc Genome Browser
encode
updated 15 months ago by 44k • written 11.8 years ago by 11k
4
votes
0
replies
2.3k
views
Tutorial: Accurate prediction of active enhancers using PARE
ChIP-Seq histone-modification enhancer
updated 12 months ago by 44k • written 7.1 years ago by ▴ 100
4
votes
1
reply
6.1k
views
Tutorial: Chip-Seq Data Analysis Tutorial
chip-seq
updated 15 months ago by 44k • written 12.1 years ago by ▴ 360
4
votes
1
reply
3.2k
views
Tutorial: Embo Practical Course On Analysis Of High-Throughput Sequencing Data
sequencing
updated 15 months ago by 44k • written 12.1 years ago by ▴ 360
4
votes
0
replies
801
views
Tutorial: How to do GSEA in R for RNAseq data
gsea RNAseq rstats
11 months ago by Ming Tommy Tang ★ 3.9k
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 44k • written 2.1 years ago by ★ 4.3k
3
votes
1
reply
3.5k
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
3
votes
0
replies
3.7k
views
Tutorial: Sorting GFF/GTF files
gtf gff
updated 14 months ago by 44k • written 3.9 years ago by 8.6k
3
votes
1
reply
668
views
Tutorial: Coordinate Systems and genomic variant description
coordinate-system HGVS normalization VCF
updated 10 months ago by 44k • written 10 months ago by 8.6k
3
votes
2
replies
3.9k
views
Tutorial: Galaxy Tutorial on ChIP-seq
galaxy ChIP-Seq
updated 12 months ago by 44k • written 7.1 years ago by ▴ 30
3
votes
1
reply
2.3k
views
Tutorial: Convert bam files to fastq in numbers as indicated in samtools flagstat stats.
samtools bam alignment fastq sequence
updated 12 months ago by 44k • written 7.0 years ago by ★ 1.6k
3
votes
3
replies
1.2k
views
Tutorial: multi-omics data integration: a case study with transcriptomics and genomics mutation data
mutation RNAseq multiomics
updated 4 months ago by ▴ 40 • written 9 months ago by ★ 3.9k
3
votes
1
reply
3.8k
views
Tutorial: Importance of Array Quality Control - arrayQualityMetrics (PART I)
gene R
updated 13 months ago by 44k • written 7.9 years ago by ▴ 140
3
votes
2
replies
603
views
Tutorial: Single-cell RNA-seq: Preprocessing: Data integration and batch correction-2
scRNA-seq
updated 4 months ago by 82k • written 4 months ago by ▴ 120
3
votes
3
replies
8.8k
views
Tutorial: High Speed Downloading of SRA, SAM and Fastq Files
fastq sam Aspera-Connect sra
updated 12 months ago by 44k • written 6.4 years ago by ▴ 100
3
votes
0
replies
773
views
Tutorial: best practices for single-cell RNAseq analysis
cell single scRNAseq
11 months ago by Ming Tommy Tang ★ 3.9k
3
votes
0
replies
4.8k
views
Tutorial: Comparing 454, Iontorrent And Miseq
454 miseq ion-torrent
updated 15 months ago by 44k • written 12.0 years ago by 100k
3
votes
0
replies
2.3k
views
Tutorial: Deep Learning for Cancer Immunotherapy
keras tensorflow
updated 12 months ago by 44k • written 6.3 years ago by 22k
3
votes
4
replies
3.6k
views
Tutorial: Gene Set Enrichment Analysis on T-BioInfo
gene RNA-Seq
updated 12 months ago by 44k • written 5.6 years ago by ▴ 340
3
votes
2
replies
2.7k
views
Tutorial: Continuing Education (Pipelines): Best blogs, Online Lectures, Workshops, etc..
conferences Workshops
updated 12 months ago by 44k • written 7.1 years ago by ▴ 100
3
votes
0
replies
1.9k
views
Tutorial: Project-based bioinformatics workshops online
ChIP-Seq RNA-Seq genome gene
updated 13 months ago by 44k • written 7.8 years ago by ▴ 340
3
votes
0
replies
2.1k
views
Tutorial: Live webinar on 25 June: Copy Number Detection in Inherited Disorders and Somatic Cancer
copy-number-analysis strand-ngs cnv DNA-seq tumor
updated 17 months ago by 44k • written 9.0 years ago by ▴ 70
3
votes
0
replies
260
views
Tutorial: Premade library preparation – considerations, tips and tricks (IA)
Premade-library Illumina NovaSeqX
3 months ago by Novogene ▴ 420
3
votes
1
reply
1.7k
views
Tutorial: Various youtube tutorials, including using proteomicsdb, finding adaptors, etc.
RNA Python
updated 13 months ago by 44k • written 8.2 years ago by ★ 1.1k
3
votes
2
replies
8.9k
views
Tutorial: Use fastp to preprocess FASTQ data with unique molecular identifer (UMI) integrated
FASTQ UMI fastp
updated 12 months ago by 44k • written 6.5 years ago by ★ 2.5k
3
votes
4
replies
4.5k
views
Tutorial: gencore: a tool to reduce sequencing noises by generating consensus reads
consensus OpenGene sequencing-noise
updated 12 months ago by 44k • written 6.1 years ago by ★ 2.5k
3
votes
2
replies
5.3k
views
Tutorial: Reorder Vcf Files
vcf
updated 15 months ago by 44k • written 11.0 years ago by ▴ 60
3
votes
0
replies
3.6k
views
Tutorial: Video Tutorial On Conducting Whole-Exome Sequencing Research
exome-sequencing
updated 15 months ago by 44k • written 10.9 years ago by 9.7k
3
votes
2
replies
2.9k
views
Tutorial: Running fastq_screen on your data
fastqscreen
2.2 years ago by rohitsatyam102 ▴ 870
2
votes
0
replies
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 44k • written 10 months ago by ★ 3.9k
2
votes
1
reply
62k
views
Tutorial: Docker denied: requested access to the resource is denied
docker
updated 22 months ago by 4.2k • written 22 months ago by ▴ 20
2
votes
0
replies
2.1k
views
Tutorial: NGS Data Analysis Training - June 22-26, 2015
NGS CNV ChIP-Seq SNP RNA-Seq
updated 14 months ago by 44k • written 9.0 years ago by ▴ 20
2
votes
1
reply
1.6k
views
Tutorial: A very simple way to detect viruses and microorganisms from mNGS FASTQ data using fastv
SARS-CoV-2 fastv COVID-19 viruses
updated 14 months ago by 44k • written 4.0 years ago by ★ 2.5k
2
votes
0
replies
1.0k
views
Tutorial: ChIP-Seq Analysis Tutorial
Epigenetics Bowtie2 MACS2 ChIP-Seq Motif
updated 14 months ago by 82k • written 14 months ago by ▴ 40
2
votes
0
replies
244
views
Tutorial: Premade library preparation – considerations, tips and tricks (II)
Illumina. Premade-library. NovaSeqX.
3 months ago by Novogene ▴ 420
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 44k • written 7.9 years ago by ▴ 140
2
votes
0
replies
6.9k
views
Tutorial: How to - Install Python packages in a virtual environment (virtualenv)
ubuntu cutadapt virtualenv python windows
updated 12 months ago by 44k • written 6.5 years ago by ▴ 320
2
votes
0
replies
4.8k
views
Tutorial: Calculation of TSS Scores for ATAC-seq Data
next-gen-sequencing
updated 14 months ago by 44k • written 4.8 years ago by ▴ 20
2
votes
1
reply
3.0k
views
Tutorial: Scripting for Biology - Online Virtual Classroom-based Module
perl python GO class
updated 20 months ago by 44k • written 8.7 years ago by ★ 1.1k
2
votes
1
reply
2.8k
views
Tutorial: Converting TSV file to VCF
vcf preprocessing frequency
updated 16 months ago by 162k • written 16 months ago by ★ 2.2k
2
votes
0
replies
604
views
Tutorial: Managing your data (BAM, VCF, sample, phenotype) with RDF and SPARQL.
rdf sparql data-management graph
updated 8 months ago by 44k • written 8 months ago by 162k
2
votes
2
replies
2.1k
views
Tutorial: Human mitochondrial DNA annotation in SnpEff
chrMT SNP snpEff
updated 14 months ago by 44k • written 3.9 years ago by 3.2k
2
votes
0
replies
2.2k
views
Tutorial: Ensembl Virtual Machine - Ensembl Api And Variant Effect Predictor Ready To Go
ensembl
updated 15 months ago by 44k • written 12.1 years ago by ▴ 360
2
votes
0
replies
1.8k
views
Tutorial: How to get protein sequence from UniProtID or any other accession
protein uniprot sequence
updated 13 months ago by 44k • written 7.9 years ago by ▴ 960
2
votes
5
replies
2.2k
views
Tutorial: Building OMA database on SGE
oma
updated 13 months ago by 44k • written 7.9 years ago by ▴ 10
2
votes
0
replies
744
views
Tutorial: Get a list of genes associated with a drug in 1 min
drug genes drug-targets
updated 11 months ago by 44k • written 11 months ago by ▴ 20
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 44k • written 4.3 years ago by ▴ 10
2
votes
0
replies
495
views
Tutorial: Understanding Hierarchical Clustering in R, Distance Measures, and Linkage Methods
clustering gene-expression rstats
updated 10 months ago by 44k • written 10 months ago by ★ 3.9k
2
votes
1
reply
502
views
Tutorial: Single-cell RNA-seq: Preprocessing: Clustering space and evaluation
scRNA-seq space clustering
updated 4 months ago by 44k • written 4 months ago by ▴ 120
412 results • Page 6 of 9
Recent Votes
Comment: Functional enrichment analysis for unique gene IDs
Answer: How do i calculate the mean of triplicates in a data.frame based on pattern?
How do i calculate the mean of triplicates in a data.frame based on pattern?
C: snpEff assigned all variants as modifier intergenic
A: Problem in indexing toplevel genome with HISAT2
C: The Biostar Handbook. A bioinformatics e-book for beginners.
Answer: Error with BiocParallel. No barcodes files found
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Comment: Venter Genome Vcf by Jeremy Leipzig 22k
there are some violations in this VCF: - Invalid count number, with fixed count the number should be 1 or higher: key=INFO name=TSA type=St…
Answer: Cut&Run and heatmap by sogand • 0
Hi all, I am new to cut&run or any peak-related analysis and appreciate any guidance on my issue here: I have analyzed peakcalling .txt …
Comment: Functional enrichment analysis for unique gene IDs by Pegasus ▴ 100
Since the locus-tags are unclassified, I used the CDS instead of the locus-tags to retrive their ensembl IDs using ensembl bacteria website…
Comment: samtools mpileup error - 1 samples in 1 input files by Damla • 0
Could you find a solution to your problem?
Comment: txt file to bigwig by sogand • 0
Hi all, I am new to these kind of analysis and appreciate any guidance on my issue here: I have analyzed peakcalling .txt files that are r…
Answer: Help me with Heatmap by MolGeek ▴ 50
Hello! So, what is the correct design ? You will have to ask yourself, what do you want to compare? WT vs mut? If so it will be strain. 2…
Answer: Help me with simple data for RNA seq by swbarnes2 14k
1) you have to say what question you are actually asking. There are few different designs that would address different questions. 2) work…
Comment: identify the coordinate for coding and non_coding region. by Ghada • 0
mmmm I am not sure. This is how I generate my consnsus sequence # Get consensus fastq file samtools mpileup -uf KT992094.1.fasta…
Comment: identify the coordinate for coding and non_coding region. by GenoMax 142k
Why do you have those N's at the beginning of the sequence? If the remainder of the sequence matches 100% then the initial N's may be wrong…
Answer: Salmon vs Kallisto vs RSEM by Rob 6.6k
It's nice that you've gone ahead and done some analysis of these results and their differences on your data yourself. These more general qu…
Comment: Python script to query GeneCards to get EntrezID, symbol from Ensembl geneID by Mike Smith ★ 2.0k
In this location there is an "entrez" file which maps ensembl IDs to Entrez. It's probably as definitive as you're going to find: https://…
Comment: Python script to query GeneCards to get EntrezID, symbol from Ensembl geneID by Anya • 0
Tried it just recently with almost the same results. 456 out of 496 IDs for protein-coding genes returned as "NA" even though I can see NCB…
Answer: Download All The Bacterial Genomes From Ncbi by 2284046470 • 0
wget https://ftp.ncbi.nlm.nih.gov/genomes/refseq/bacteria/assembly_summary.txt awk -F '\t' '{if($12=="Complete Genome" && $11=…
Answer: How do i calculate the mean of triplicates in a data.frame based on pattern? by dariober 14k
I'm a happy user of [data.table](https://rdatatable.gitlab.io/data.table/): ``` library(data.table) dat <- structure(list(sgrna = c("Cont…
Comment: How do i calculate the mean of triplicates in a data.frame based on pattern? by Assa Yeroslaviz ★ 1.9k
I know it can be done with something like that: ``` cbind(p767.AM = (rowMeans(p767[,2:4])), p767.MM = (rowMeans(p767[,5:7]…
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