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116 results • Page 2 of 3
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12
votes
5
replies
1.8k
views
Tutorial: FASTA file split
fasta
updated 14 days ago by 38k • written 2.8 years ago by 7.8k
10
votes
5
replies
18k
views
Tutorial: Y-DNA and mtDNA Haplogroup Predictor
haplogroup
updated 14 days ago by 38k • written 4.7 years ago by ★ 9.3k
15
votes
5
replies
11k
views
6 follow
Tutorial: Easy way to do GO enrichment in R
enrichr RNA-Seq gene R
updated 19 days ago by 38k • written 5.3 years ago by ▴ 740
29
votes
5
replies
5.9k
views
Tutorial: Gnu Parallel Tutorial
parallel gnu-parallel
updated 29 days ago by 38k • written 9.5 years ago by ★ 4.3k
28
votes
4
replies
3.7k
views
Tutorial: Modern Statistics for Modern Biology
statistics
updated 14 days ago by 38k • written 4.2 years ago by 26k
32
votes
4
replies
6.4k
views
Tutorial: Fast LD computation from VCF files using tomahawk
ld snp vcf vcftools bcftools
updated 12 days ago by 38k • written 4.4 years ago by ★ 1.5k
12
votes
4
replies
1.8k
views
Tutorial: Tutorials for Library Normalization in DESeq2 and EdgeR
EdgeR DESeq2
updated 6 days ago by 38k • written 5.5 years ago by ▴ 570
20
votes
4
replies
2.2k
views
Tutorial: Bash One-liners collection on Github
bash linux shell
updated 14 days ago by 38k • written 3.9 years ago by ▴ 180
9
votes
4
replies
9.0k
views
Tutorial: Using the MinION MinKNOW software on Ubuntu 1604
long-reads oxford-nanopore minion
updated 14 days ago by 38k • written 3.7 years ago by 4.6k
23
votes
4
replies
6.2k
views
Tutorial: Using EnrichedHeatmap for visualization of NGS experiments
heatmap chip-seq atac-seq EnrichedHeatmap
updated 14 days ago by 38k • written 3.6 years ago by 70k
15
votes
4
replies
4.1k
views
Tutorial: RNASeq tutorial for gene differential expression analysis
Transcriptomics bioconductor RNA-Seq R
updated 14 days ago by 38k • written 2.7 years ago by ▴ 300
6
votes
3
replies
4.1k
views
Tutorial: Principles and Workflow of 16S/18S/ITS Amplicon Sequencing
alignment sequencing RNA-seq gene
updated 14 days ago by 38k • written 4.4 years ago by ▴ 40
5
votes
3
replies
4.5k
views
Tutorial: bam2rpkm by bedtools
bam RNA-Seq bedtools rpkm
updated 13 days ago by • 0 • written 5.4 years ago by ▴ 130
4
votes
3
replies
3.9k
views
Tutorial: How to get full taxonomy classification using taxize and myTAI
taxonomy R
updated 14 days ago by 38k • written 5.0 years ago by ★ 3.9k
50
votes
3
replies
4.0k
views
Tutorial: [[ Please read before posting a question ::: How To Ask A Good Question ]]
how-to
updated 14 days ago by 38k • written 4.2 years ago by 70k
12
votes
2
replies
1.0k
views
Tutorial: Factors in R - How do they work, and how did I break my data?
R
updated 14 days ago by 38k • written 2.0 years ago by 11k
4
votes
2
replies
2.0k
views
Tutorial: Apply beagle5.0 to make imputation and phasing under CentOS and PBS
beagle5.0 beagle
updated 15 days ago by 38k • written 3.8 years ago by ★ 9.3k
2
votes
2
replies
1.5k
views
Tutorial: Human mitochondrial DNA annotation in SnpEff
chrMT SNP snpEff
updated 14 days ago by 38k • written 2.8 years ago by 3.1k
15
votes
2
replies
2.7k
views
Tutorial: Introduction to bedtools.
bedtools
updated 19 days ago by 38k • written 8.4 years ago by 11k
80
votes
2
replies
53k
views
Tutorial: How To Ask Good Questions On Technical And Scientific Forums
how-to
updated 29 days ago by 38k • written 9.8 years ago by 11k
6
votes
2
replies
2.4k
views
Tutorial: Tutorial Bioinformatics Static Website
website
updated 26 days ago by 38k • written 9.2 years ago by ▴ 610
5
votes
2
replies
2.0k
views
Tutorial: NCBI submissions: SRA and TSA
NCBI TSA SRA RNA-Seq
updated 12 days ago by 38k • written 4.4 years ago by ▴ 50
4
votes
2
replies
3.3k
views
Tutorial: Introduce OpenGene: an open source library for processing NGS data
NGS sequencing Julia OpenGene
updated 14 days ago by 38k • written 7.1 years ago by ★ 2.4k
14
votes
2
replies
2.8k
views
Tutorial: Methylation Analysis Tutorial in R_part2
cancer methylation RNA-Seq R
updated 14 days ago by 38k • written 2.5 years ago by 2.9k
5
votes
2
replies
2.0k
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 14 days ago by 38k • written 4.2 years ago by ▴ 10
0
votes
1
reply
1.6k
views
Tutorial: Guide Tutorial DEAP 2.1 In Windows 7
DEAP2.1 R stata
updated 11 days ago by 38k • written 5.2 years ago by ▴ 10
2
votes
1
reply
2.5k
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 days ago by 38k • written 3.1 years ago by ▴ 10
2
votes
1
reply
1.2k
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 days ago by 38k • written 2.8 years ago by ★ 2.4k
12
votes
1
reply
4.8k
views
Tutorial: scRNA-seq CITE-seq-count bioinformatics
CITE-seq-count scRNA-seq RNA-Seq
updated 14 days ago by 38k • written 3.0 years ago by 4.6k
1
vote
1
reply
1.1k
views
Tutorial: Downloading GnuWin and using to convert txt to bed file for windows users
bed bed2txt sequencing txt
updated 14 days ago by 38k • written 2.6 years ago by • 0
4
votes
1
reply
1.0k
views
Tutorial: Real World BEDtools. Practical Examples for Variant Filtering and Gene Annotations
BED BEDtools
updated 14 days ago by 38k • written 2.6 years ago by ▴ 40
11
votes
1
reply
2.2k
views
Tutorial: Guidelines for the computational analysis of single-cell RNA sequencing data
scRNA-seq
updated 14 days ago by 38k • written 2.2 years ago by ★ 23k
5
votes
1
reply
2.3k
views
Tutorial: Nice simple interactive Vim tutorial
vim linux
updated 20 days ago by 38k • written 8.4 years ago by 9.5k
8
votes
1
reply
1.0k
views
Tutorial: Split a 'linearised' (flattened) FASTA sequence into multi-line using AWK
fasta awk
updated 15 days ago by 38k • written 2.0 years ago by 84k
6
votes
1
reply
2.8k
views
Tutorial: Practical Guidelines for the Comprehensive Analysis of ChIP-seq Data
ChIP-Seq peak-calling sequencing
updated 22 days ago by 38k • written 9.0 years ago by ▴ 220
0
votes
1
reply
2.4k
views
Tutorial: Getting the lineage of an organism from NCBI taxonomy data
biosql python taxonomy
updated 14 days ago by 38k • written 4.6 years ago by ▴ 310
10
votes
1
reply
2.0k
views
Tutorial: introduce a tool for fast identification of SARS-CoV-2 and other microbes from sequencing data
SARS-CoV-2 fastv COVID-19
updated 14 days ago by 38k • written 3.0 years ago by ★ 2.4k
5
votes
1
reply
1.7k
views
Tutorial: A Guide to DNA Sequencing Techniques Part 1
dna sanger sequencing pyrosequencing
updated 4 days ago by 38k • written 7.7 years ago by ▴ 370
0
votes
0
replies
2.0k
views
Tutorial: Using OpenEye software for substructure alignments and best-matching low-energy conformer overlays
rmsd alignment openeye
updated 22 days ago by 38k • written 8.7 years ago by ▴ 140
6
votes
0
replies
1.3k
views
Tutorial: NCBI dbVar releases updated human reference structural variation (SV) data files and tutorials
dbvar structural-variation
updated 12 days ago by 38k • written 4.4 years ago by ▴ 70
0
votes
0
replies
855
views
Tutorial: BrainArray CDF, annotation, etc
db brainarray cdf
updated 14 days ago by 38k • written 2.5 years ago by 84k
4
votes
0
replies
1.4k
views
Tutorial: NIH CDE browser for TCGA clinical data CDE codes
nih tcga metadata cde
updated 14 days ago by 38k • written 3.0 years ago by 84k
0
votes
0
replies
1.2k
views
Tutorial: VIDEO: Installing BLAST Databases on Your Own Computer
BLAST-databases Linux sequence MacOSX
updated 14 days ago by 38k • written 2.8 years ago by ▴ 440
7
votes
0
replies
4.5k
views
Tutorial: How To Perform A Hierarchical Clustering Using Interactive Heatmaps From Gitools?
clustering
updated 25 days ago by 38k • written 9.0 years ago by ▴ 990
1
vote
0
replies
1.9k
views
Tutorial: A short primer to pairwise alignment
pairwise-alignment blastp pam blosum
updated 4 days ago by 38k • written 7.7 years ago by ▴ 370
26
votes
0
replies
2.1k
views
Tutorial: Resources / databases for clinical interpretation of cancer variants
interpretation cancer annotation variant
updated 14 days ago by 38k • written 3.5 years ago by 19k
4
votes
0
replies
589
views
Tutorial: Finding individual motif occurrences with FIMO from the MEME suite
motif meme jaspar fimo
updated 12 days ago by 38k • written 4.3 years ago by 70k
6
votes
0
replies
3.4k
views
Tutorial: How to predict genes using a two-pass (iterative) MAKER2 workflow
Assembly
updated 22 days ago by 38k • written 8.8 years ago by 7.7k
1
vote
0
replies
126
views
Tutorial: List of Machine Learning-Based Scoring Function Papers
machine_learning papers scoring_function docking
13 days ago by Milad ▴ 10
0
votes
0
replies
924
views
Tutorial: Introduction to Gen3 Webinar
gen3 open-source data-commons big-data
updated 14 days ago by 38k • written 4.1 years ago by ▴ 310
116 results • Page 2 of 3
Recent Votes
Getting error in running GATK (GenomeAnalysisTK-3.7)?
Comment: Suggestion for approaching multiple conditions scRNA-seq
A: Vertebrate Subset Nr Database? Build My Own?
Vertebrate Subset Nr Database? Build My Own?
Why Are There Many Rna-Seq Hits To Intronic Regions?
Comment: Question on how to filter DESeq2 results correctly and use of the results functi
Answer: Question on how to filter DESeq2 results correctly and use of the results functi
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Recent Replies
Comment: ClusterProfiler : What is GeneRatio and BgRatio? by Rene • 0
genes <- letters[1:15] gs_df <- data.frame("gs_name"=c(rep("genesetX", 10), rep("genesetY", 25)), "entrez_g…
Comment: FeatureCounts >edgeR > GO by Pegasus ▴ 80
Thank you Basti. I annotated my genome using NCBI annotation tool, so I believe I should use the NCBI database. However, the gene_IDS l…
Comment: Suggestion for approaching multiple conditions scRNA-seq by Eisuan ▴ 20
Hi, I analyzed the datasets separately as follows: - control+condition 1 - control + condition 1+2 (not all the three merged!) I applied…
Comment: Update MitoZ 3.4 to 3.5 by Ram 38k
Right, that is one interpretation. Another is that they wish to replace the existing version and not add a new version, as most users new t…
Comment: Quality control of Chip-seq data (NRF and PCB) by Darked89 4.2k
If you remove the duplicates then the non-redundant/non-duplicated fraction will be 1.0. But if you save the log file during the de-duplic…
Comment: Update MitoZ 3.4 to 3.5 by Darked89 4.2k
Well, the author asked for "update without uninstall", so I assumed he/she wants to keep the 3.4 version for the time being.
Comment: Suggestion for approaching multiple conditions scRNA-seq by ATpoint 70k
"performed on Seurat" is like saying that the repair was done with a hammer and skrewdriver. Seurat has plenty of functions, you need to be…
Comment: Update MitoZ 3.4 to 3.5 by Ram 38k
While this installs a conda environment with mitoz 3.5, it does not technically update the existing installation. Please note that this (i.…
Answer: Update MitoZ 3.4 to 3.5 by Darked89 4.2k
conda create -n mitoz_35 conda activate mitoz_35 conda install -c bioconda mitoz **EDIT** you can also use Singularity conta…
Comment: What is the NCBI's definition of an "atypical genome"? by GenoMax 127k
You probably need to ask NCBI Help desk for an authoritative answer. Post their response when you get one here.
Comment: How to limit the use of RAM for clustalo? by animeshizik • 0
Hello, thank you for responding to the problem! My work computer has 32GB of RAM. I was running an alignment for a 5000 genome monkey pox…
Comment: Suggestion for approaching multiple conditions scRNA-seq by Eisuan ▴ 20
Hi! Two biological replicates. The previous analysis has been performed on Seurat.
Comment: How to demultiplex single end - dual index run - NextSeq 500 by Apex92 ▴ 260
Thank you.
Comment: genome annotation [sstart] [send] - how to get protein sequence from gene by danfarkas • 0
Hi shenwei356, Thanks for the clarification. That makes sense. I also realised that the reason I was confused, is because I need to also …
Comment: Suggestion for approaching multiple conditions scRNA-seq by rpolicastro 11k
Do you have 2 biological or technical replicates for each condition? Also, you mentioned you didn't find dramatic changes with your analysi…
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