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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 2.1 years ago by 44k • written 9.3 years ago by ▴ 70
7
votes
2
replies
1.8k
views
Tutorial: A tale of two heatmap function
clustering heatmap
updated 13 months ago by 44k • written 7.7 years ago by ★ 3.9k
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
18
votes
2
replies
10k
views
Tutorial: Video: RNA-Seq Alignment and Visualization using Galaxy and IGB
RNA-Seq Galaxy IGB
updated 2.2 years ago by 44k • written 9.6 years ago by ▴ 860
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 44k • written 7.1 years ago by ★ 9.4k
1
vote
2
replies
1.6k
views
Tutorial: ViennaRNA package installation in Windows
windows rna mfold viennarna
updated 11 months ago by 44k • written 20 months ago by ▴ 20
18
votes
2
replies
5.9k
views
Tutorial: Update kraken databases
database kraken k-mer python
updated 12 months ago by 44k • written 7.1 years ago by 5.3k
3
votes
2
replies
2.9k
views
Tutorial: Running fastq_screen on your data
fastqscreen
2.2 years ago by rohitsatyam102 ▴ 870
7
votes
2
replies
12k
views
Tutorial: Howto use NCBI programs behind a HTTP proxy
blast-plus HTTP-proxy SRA-toolkit
updated 22 months ago by 44k • written 8.3 years ago by ★ 1.8k
14
votes
2
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2.4k
views
Tutorial: Exploring OpenSNP - an RMarkdown report on crowdsourced genotypes and phenotypes
SNP R
updated 13 months ago by 44k • written 8.2 years ago by 22k
0
votes
2
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2.4k
views
Tutorial: COURSE: NGS variant analysis and interpretation for translational research
CNIO course translational
updated 13 months ago by 44k • written 7.7 years ago by ▴ 190
12
votes
2
replies
1.3k
views
Tutorial: Factors in R - How do they work, and how did I break my data?
R
updated 14 months ago by 44k • written 3.2 years ago by 13k
10
votes
2
replies
3.7k
views
Tutorial: Graph visualization with igraph in R
Visualization igraph Graph R Network
updated 12 months ago by 44k • written 7.1 years ago by 27k
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
15
votes
2
replies
2.1k
views
Tutorial: Germline variant calling pipeline using Snakemake
snakemake GATK germline_variant_calling
updated 19 months ago by ▴ 830 • written 2.7 years ago by ▴ 360
87
votes
2
replies
59k
views
6 follow
Tutorial: How To Ask Good Questions On Technical And Scientific Forums
how-to
updated 14 months ago by 44k • written 10.9 years ago by 11k
6
votes
2
replies
1.6k
views
Tutorial: GSE28955 - Agilent-016436 Human miRNA Microarray 1.0
limma GPL6955 Microarray miRNA Agilent
2.8 years ago by Kevin Blighe 88k
14
votes
2
replies
6.5k
views
Tutorial: ChIP-seq analysis tutorial
ChIP-Seq
updated 13 months ago by 44k • written 8.7 years ago by ★ 3.9k
6
votes
2
replies
2.7k
views
Tutorial: Tutorial Bioinformatics Static Website
website
updated 14 months ago by 44k • written 10.3 years ago by ▴ 610
0
votes
2
replies
5.4k
views
Tutorial: Install AMOS on Ubuntu 13.10
sequencing alignment software-error next-gen
updated 2.6 years ago by 44k • written 9.9 years ago by 9.7k
9
votes
2
replies
5.5k
views
Tutorial: From Data import to Normalization in Microarray Analysis using in R (Part I)
gene R
updated 13 months ago by 44k • written 7.9 years ago by ▴ 140
1
vote
2
replies
908
views
Tutorial: How to ask computational biology questions
computational-biology
updated 11 months ago by 44k • written 11 months ago by ★ 3.9k
60
votes
2
replies
7.4k
views
Tutorial: Table Of Contents To All Review Paper Compilations On Biostar
papers
updated 15 months ago by 44k • written 11.7 years ago by 100k
45
votes
2
replies
37k
views
Tutorial: Mapping Reads With Bwa And Bowtie
bowtie bwa
updated 15 months ago by 44k • written 12.1 years ago by ▴ 540
15
votes
2
replies
6.9k
views
Tutorial: Genotype And Snp Calling Review Papers
snp
updated 15 months ago by 44k • written 11.7 years ago by 100k
6
votes
1
reply
2.6k
views
Tutorial: Nice simple interactive Vim tutorial
vim linux
updated 14 months ago by 44k • written 9.6 years ago by 9.7k
0
votes
1
reply
1.9k
views
Tutorial: Nonparametric Regression STATA 15
STATA-15 Nonparametric-Regression STATA
updated 12 months ago by 44k • written 6.4 years ago by ▴ 10
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
0
votes
1
reply
1.4k
views
Tutorial: SFA (Stochastic Frontier Analysis) Frontier 4.1
r spss
updated 14 months ago by 44k • written 6.3 years ago by ▴ 10
6
votes
1
reply
7.8k
views
Tutorial: Expression Analysis Of Rna-Seq Experiments With Tophat And Cufflinks
tophat RNA-seq cufflinks
updated 15 months ago by 44k • written 12.0 years ago by 100k
15
votes
1
reply
4.0k
views
Tutorial: Dealing with nanopore fast5 files compressed with vbz
hdf5 nanopore fast5 vbz MinKNOW
updated 20 months ago by ★ 1.8k • written 2.4 years ago by 14k
6
votes
1
reply
492
views
Tutorial: Bulk RNA-seq: Different Expression Analysis
differential-expression RNA-seq
updated 4 months ago by 44k • written 4 months ago by ▴ 120
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
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
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 44k • written 5.8 years ago by ▴ 320
0
votes
1
reply
568
views
Tutorial: TAPIS installation and usage
APA Iso-seq splicing TAPIS analysis alternative
updated 8 months ago by 82k • written 8 months ago by ▴ 30
3
votes
1
reply
661
views
Tutorial: Coordinate Systems and genomic variant description
coordinate-system HGVS normalization VCF
updated 9 months ago by 44k • written 9 months ago by 8.6k
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
50
votes
1
reply
8.9k
views
Tutorial: Basic normalization, batch correction and visualization of RNA-seq data
edger RNA-seq
updated 15 months ago by 44k • written 3.7 years ago by 82k
0
votes
1
reply
3.2k
views
Tutorial: Accessing sequences using batch entrez
genome
updated 12 months ago by 44k • written 6.6 years ago by • 0
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 44k • written 8.0 years ago by 20k
0
votes
1
reply
2.2k
views
Tutorial: From Genefiltering to Results storgae in Microarray Analysis using in R (Part II) - FARMS
gene R
updated 13 months ago by 44k • written 7.9 years ago by ▴ 140
4
votes
1
reply
1.9k
views
Tutorial: One of the easy way to achieve read count and RPKM file
RNA-Seq
updated 12 months ago by 44k • written 6.8 years ago by ▴ 40
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
12
votes
1
reply
5.1k
views
Tutorial: RepSeq data processing and analysis
immunology tcr repseq sequencing repertoire
updated 19 months ago by 44k • written 8.8 years ago by 3.5k
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 44k • written 7.9 years ago by ▴ 140
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 6.9 years ago by ★ 1.6k
14
votes
1
reply
3.1k
views
Tutorial: PCR Primer or Primer+Probe design
pcr probe rt-pcr qpcr primer
updated 3.0 years ago by ★ 17k • written 3.0 years ago by 88k
8
votes
1
reply
1.9k
views
Tutorial: A Guide to DNA Sequencing Techniques Part 1
dna sanger sequencing pyrosequencing
updated 14 months ago by 44k • written 8.9 years ago by ▴ 430
2
votes
1
reply
2.8k
views
Tutorial: Converting TSV file to VCF
vcf preprocessing frequency
updated 16 months ago by 161k • written 16 months ago by ★ 2.2k
412 results • Page 5 of 9
Recent Votes
Construction of circos plot from WGS data
Answer: Different SNP at the at a position in vcf file compared to REF and ALT allele.
Answer: Different SNP at the at a position in vcf file compared to REF and ALT allele.
Different SNP at the at a position in vcf file compared to REF and ALT allele.
Comment: downloading chemical database from ChEMBL
Seurat-Merging and integrate
voom mean-variance plot has set of genes where variance increases with expression level
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Popular Question to anasjamshed ▴ 120
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Recent Replies
Answer: from CRAM to fastq by Pierre Lindenbaum 161k
if the CRAM/BAM is paire-end, it **must** be sorted on query name using samtools collate https://x.com/lh3lh3/status/1132756684789768202 …
Comment: from CRAM to fastq by machaalani29 • 0
one of the issues is that I am not very sure how the sequencing was done, but I think it was single end. any suggestions hoot do that?
Comment: from CRAM to fastq by machaalani29 • 0
the option -c is to compress the file
Comment: from CRAM to fastq by GenoMax 142k
Possibly. You appear to have written the data to a single file (in case it was paired-end to begin with). Check to make sure secondary alig…
Comment: converting transcript IDs (Ensembl) to gene symbols in R by GenoMax 142k
https://www.biostars.org/u/18990/ : Please do not delete threads that have received a comment/answer.
Comment: downloading chemical database from ChEMBL by GenoMax 142k
Activities with `cucurbitacin A`: https://www.ebi.ac.uk/chembl/web_components/explore/activities/STATE_ID:RHxG8uDfrtbmiyaY55ic-w%3D%3D `cu…
Comment: KEGG analysis in R by letizia.ottaviani • 0
Hello, I have a problem to do the analysis in R. I want to kindly ask you: How did you perform KEGG pathway enrichment analysis in R for…
Comment: downloading chemical database from ChEMBL by s • 0
Thank you for your reply. I am still struggling with the first step, namely "select a compound" . can you be more specific with this step? …
Comment: No output when converting transcript IDs to gene symbols by ATpoint 82k
Honestly, why the overhead with biomart? Get a GTF file that matches your annotations, and just do a left join with your transcript IDs, it…
Answer: vg autoindex seems stuck after a week of running by Jouni Sirén ▴ 370
GCSA construction is fragile. It can use effectively unlimited amounts of time, memory, and disk space if the graph is too complex. That's …
Comment: Blastn, need help to increase speed by Dunois ★ 2.5k
What databases are you using that are creating such large index files?
Answer: Kraken2 Custom Database non-deterministic results by colindaven 6.4k
You're using 2 different databases, so results are obviously different. This has nothing to do with deterministic or stochastic behaviour. …
Answer: How to get 2 seurat objects into a DEseq by ultraanfibio ▴ 30
Its probably best practice to read all samples into the same seurat object, then do the clustering and asign the cell type labels. Anyways …
Comment: How do we do quantification using stringtie merge option for all the merged samp by ATpoint 82k
I ask the same I always ask when people use stringtie for human data. Do you really need a transcript assembly or do you just want gene cou…
Comment: Mapping difference with BWA by ATpoint 82k
Cannot be answered without more details. At least add accessions and commands.
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