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12,357 results • Page 5 of 248
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30
votes
6
replies
13k
views
What Are Some Good Free Bioinformatics And Computational Biology Books?
books online
updated 6 months ago by 44k • written 14.1 years ago by ★ 1.0k
30
votes
13
replies
11k
views
Web Tool That Converts A Pubmed Query Into A Wordle Of The Abstracts
pubmed
updated 10 months ago by 44k • written 13.8 years ago by 4.9k
30
votes
12
replies
3.9k
views
Trying to understand the maths behind one Limma function
limma RNA-Seq batch-effect
updated 5 weeks ago by 44k • written 4.1 years ago by ▴ 330
29
votes
12
replies
13k
views
10 follow
What Is The Best Place In The World To Do Bioinformatics?
education subjective
updated 7 months ago by 44k • written 14.2 years ago by ▴ 650
29
votes
20
replies
3.8k
views
Tool: FastQt : a clone of FastQC in C++/Qt
fastqc Cpp fastq Qt
updated 11 months ago by 44k • written 7.4 years ago by ★ 2.4k
29
votes
11
replies
8.8k
views
An Interactive Heatmap For Viewing Expression Data Matrices
heatmap microarray visualization
updated 10 months ago by 44k • written 13.7 years ago by 1.9k
29
votes
18
replies
2.8k
views
12 follow
Forum: what are the big questions in bioinformatics field nowadays
genome
updated 11 months ago by 44k • written 4.2 years ago by ▴ 20
29
votes
28
replies
35k
views
11 follow
Split Fastq Files Into Chunks Of 1M Reads
split fastq
updated 19 days ago by • 0 • written 12.8 years ago by ★ 1.7k
29
votes
5
replies
3.5k
views
How Important Is It To Belong To A Professional Society In Computational Biology?
career subjective
updated 6 months ago by 44k • written 14.2 years ago by ▴ 650
29
votes
13
replies
8.5k
views
7 follow
Tools For Visualizing Significantly Altered Pathways And Related Genes In A Pathway Graph ?
pathway-visualization
updated 10 months ago by 44k • written 13.4 years ago by ★ 1.3k
28
votes
13
replies
14k
views
Taxonomy Of Blast Hits
blast taxonomy
updated 7 months ago by 44k • written 14.2 years ago by 4.6k
28
votes
16
replies
31k
views
11 follow
How Do I Convert From Bed Format To Gff Format?
gff galaxy bed
updated 7 months ago by 44k • written 14.6 years ago by 100k
28
votes
7
replies
11k
views
Tool: Quast Is A Convenient Tool For Assembly Evaluation
assembly quality
updated 11 months ago by 44k • written 11.2 years ago by ★ 1.3k
28
votes
13
replies
15k
views
7 follow
Create Consensus Sequences For Sequence Pairs Within A Multiple Alignment?
consensus phylogenetics fasta multiple-alignment
updated 6 months ago by 44k • written 14.1 years ago by ★ 2.0k
28
votes
14
replies
11k
views
7 follow
Compare Two Protein Sequences Using Local Blast
biopython blast
updated 6 months ago by 44k • written 14.2 years ago by ▴ 120
28
votes
20
replies
21k
views
7 follow
how do I run repeat masker
repeatmasker
updated 4 months ago by 11k • written 8.4 years ago by ▴ 80
28
votes
4
replies
15k
views
Tool: Plotting GSEA output in R
RNA-Seq javaGSEA GSEA
updated 11 months ago by 44k • written 7.8 years ago by ▴ 850
28
votes
17
replies
5.1k
views
7 follow
Tool: PCAtools: everything Principal Components Analysis
eigenvector pca bioconductor R
updated 11 months ago by 44k • written 5.3 years ago by 88k
28
votes
11
replies
34k
views
10 follow
Samtools View: Only Forward Or Reverse Strand
samtools strand
updated 4 months ago by • 0 • written 12.5 years ago by ▴ 540
28
votes
11
replies
19k
views
9 follow
Salary For A Bioinformatics Programmer In Europe?
career
updated 12 months ago by 44k • written 12.7 years ago by 2.3k
28
votes
7
replies
19k
views
6 follow
VCF merge or concatenate?
snp VCF VCFTools
written 4.8 years ago by ▴ 60
28
votes
16
replies
9.3k
views
7 follow
What Does Bwa'S '-N' Parameter Mean?
bwa
updated 9 months ago by ▴ 20 • written 12.4 years ago by ★ 1.8k
28
votes
19
replies
15k
views
10 follow
How To Generate Mutations In Sequences Of A Fasta File?
fasta python mutation sequence
updated 10 months ago by 44k • written 12.7 years ago by ★ 1.5k
28
votes
27
replies
15k
views
9 follow
Extracting A Subset Of Sequences From A Fastq File (Biopython Speed)
biopython python fastq next-gen-sequencing
updated 6 months ago by 44k • written 14.1 years ago by 4.6k
28
votes
15
replies
2.3k
views
12 follow
Forum: Should bioinformaticians learn the scientific names of plants and animals?
sequence
updated 12 months ago by 44k • written 5.9 years ago by ▴ 10
27
votes
17
replies
22k
views
8 follow
BioPython: convert fasta to fastq without quality score input file
parsing phred fasta BioPython fastq
updated 11 months ago by • 0 • written 10.0 years ago by 5.8k
27
votes
13
replies
6.0k
views
Tool: DEA.R: Command line script for differential expression analysis with R packages (DESeq2/edgeR/limma-voom)
edgeR DESeq2 limma RNA-Seq
updated 11 months ago by 44k • written 7.8 years ago by 47k
27
votes
6
replies
16k
views
Tool: Bioawk - Fasta, Fastq, Sam, Bed, Gff Aware Awk Programming
awk
updated 10 months ago by 44k • written 11.9 years ago by 100k
27
votes
24
replies
2.5k
views
7 follow
Code Golf - bisulfite conversion
bisulfite bsseq code-golf
updated 12 months ago by 44k • written 5.6 years ago by 22k
27
votes
8
replies
11k
views
7 follow
Any Quick Sort Method For Large Bed File As 20G In Size?
sort bed
updated 3 months ago by ▴ 530 • written 11.2 years ago by ▴ 310
27
votes
4
replies
2.7k
views
How Should A Departing Programmer Organize Things For Successors?
software
updated 6 months ago by 44k • written 14.1 years ago by ▴ 330
27
votes
10
replies
4.5k
views
7 follow
Which Are All The Databases For Annotations Of Biological Pathways?
pathway database annotation
updated 6 months ago by 44k • written 14.1 years ago by 28k
27
votes
21
replies
38k
views
12 follow
Converting a VCF with SNPs and indels to BED format
next-gen
updated 7 months ago by ▴ 70 • written 9.9 years ago by ▴ 170
27
votes
27
replies
10k
views
6 follow
How To Detect And Query Poly-Allelic Snps?
snp allele biomart dbsnp
updated 6 months ago by 44k • written 14.2 years ago by 54k
26
votes
4
replies
5.3k
views
Tool: Dgidb - Mining The Druggable Genome
dgidb drug-gene-interaction
updated 10 months ago by 44k • written 10.6 years ago by 20k
26
votes
16
replies
6.7k
views
Which Human Tumor Cell Line/Sample Genomes Have Been Already Sequenced Completely?
genome next-gen-sequencing
updated 6 months ago by 44k • written 14.2 years ago by 4.3k
26
votes
9
replies
10k
views
6 follow
DESeq2 modelling and Wald's test
RNA-Seq DESeq2
updated 12 months ago by ▴ 640 • written 6.1 years ago by ▴ 150
26
votes
11
replies
5.1k
views
7 follow
How To Filter Affymetrix Probes Related To Murine Genes Encoding Membran Proteins
affymetrix gene annotation mouse gene
updated 6 months ago by 44k • written 14.2 years ago by 4.3k
26
votes
50
replies
14k
views
8 follow
Tool: Retrieve a subset of FASTA from large Illumina multi-FASTA file
fasta multi-fasta illumina
updated 11 months ago by 44k • written 8.0 years ago by ▴ 50
26
votes
9
replies
8.4k
views
Provide A Book Review For "Bioinformatics Programming Using Python" By Mitchell L. Model
python books
updated 7 months ago by 44k • written 14.2 years ago by 2.3k
26
votes
9
replies
19k
views
8 follow
Favorite Splice Site Prediction/Evaluation Tools
splicing prediction
updated 11 months ago by ▴ 30 • written 11.5 years ago by 3.5k
26
votes
27
replies
2.2k
views
10 follow
Forum: Determining computer time required
computer hpc time
updated 4 months ago by ★ 6.0k • written 4 months ago by ▴ 40
26
votes
8
replies
1.7k
views
7 follow
Forum: Reasons to refuse to give support
design rna-seq statistics
updated 12 months ago by 44k • written 5.5 years ago by 8.3k
26
votes
18
replies
8.6k
views
10 follow
Indexing Compressed Fastq-Like Data
fastq
updated 10 months ago by 44k • written 13.8 years ago by ★ 5.1k
26
votes
5
replies
24k
views
BLAST options: max_target_seqs and num_alignments
blast
updated 8 weeks ago by ▴ 30 • written 9.5 years ago by ★ 1.4k
25
votes
19
replies
8.2k
views
10 follow
Tool: pathfindR - Enrichment Analysis using Active Subnetworks
subnetwork R pathway-enrichment
updated 11 months ago by 44k • written 6.2 years ago by ★ 1.3k
25
votes
11
replies
3.8k
views
6 follow
Forum: Site Use Guidelines
meta biostars Guidelines
updated 28 days ago by 44k • written 14.6 years ago by 100k
25
votes
10
replies
3.0k
views
10 follow
Any suggestions for basic intro to submitting jobs to an HPC cluster?
ngs hpc
updated 12 months ago by 44k • written 5.7 years ago by ▴ 420
25
votes
14
replies
5.5k
views
6 follow
Where/How To Assess Which Bioinformatics Tools/Databases Are Most Used/Accessed?
database
updated 10 months ago by 44k • written 11.4 years ago by 1.9k
25
votes
15
replies
7.8k
views
9 follow
Randomize Read Order In Multigbp Fastq File?
fastq
updated 10 weeks ago by • 0 • written 12.9 years ago by ★ 5.1k
12,357 results • Page 5 of 248
Recent Votes
Answer: geom_bar issue in ggplot2 with xlim()
A: How Can I Get The Human Chromosome Centromere Position And Chromosome Length In
GO analysis: Different results EnrichGO vs ShinyGO
Comment: NGS forensics: how to know if data is fabricated
T2T-CHM13 "complete" human genome gff/gtf annotation file
Answer: T2T-CHM13 "complete" human genome gff/gtf annotation file
Comment: Problem in getting geo file through GEOQUERY
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Recent Replies
Comment: BiomartException: Query ERROR for existing dataset in BioMart by Luqman • 0
Yes please see below: TraesCS2B02G372900 TraesCS2B02G375100 TraesCS2B02G374700 TraesCS2B02G382000
Comment: Functional enrichment analysis for unique gene IDs by Pegasus ▴ 100
Thanks for your answer, but as far as I know, gProfiler2 does not support bacteria. Could you please suggest alternative websites or softwa…
Comment: Create a new bed file with all pairwise combinations between two other bed files by J ▴ 10
Hi Alex, I'm sorry if I wasn't initially clear! The question hasn't changed; I had written in this post that I wanted all pairwise combinat…
Comment: BiomartException: Query ERROR for existing dataset in BioMart by Nyksubuz ▴ 20
Could share some examples for gene_ids?
Comment: Problem in getting geo file through GEOQUERY by anasjamshed ▴ 120
yeah but i am unable to find the link of GPL6244.soft.gz
Comment: Problem in getting geo file through GEOQUERY by ATpoint 82k
> Can you send me ftp link so I can download that soft file manually? Please find this link on your own by browsing the respective GEO ent…
Comment: Problem in getting geo file through GEOQUERY by anasjamshed ▴ 120
Thanks . I have downloaded all other files but just have problem in Error in downloadFile(myurl, destfile, mode = mode, quiet = TRUE)…
Answer: Problem in getting geo file through GEOQUERY by ATpoint 82k
Code runs for me and finishes in seconds. Maybe some poor internet connection on your end. Just set the timeout to 9999999 and retry. If th…
Comment: transanno liftvcf "Error: length of chromosome [chr] is not equal to length in c by ezz3 • 0
Thanks. I was wondering if that is the case but was having some issues understanding the transanno code which is written in rust and I don…
Answer: Multi-ploid data in ANGSD and NGSadmix by andersdetermig ▴ 20
1 ) I would not expect the haploid individuals to always cluster together but the model assumptions are violated. First of all the diploid…
Comment: transanno liftvcf "Error: length of chromosome [chr] is not equal to length in c by Pierre Lindenbaum 161k
"Are you using correct reference?" may be your reference is not using the same chrM. see https://www.biostars.org/p/199796/#199803
Comment: Fewer sites in vcf than in reference genome despite Emit_All_Sites argument by shpak.max ▴ 50
Could you please elaborate on what you mean by passing -L or -V, i.e. what would the appropriate argument be for -L with UnifiedGenotyper f…
Answer: Add stats to the plot by Ghada • 0
It works. I have added this code my_comparisons=list(c("HRSV", "HRSV_RBV")) plot + stat_compare_means(method = "wilcox.test",…
Comment: Fewer sites in vcf than in reference genome despite Emit_All_Sites argument by LChart 3.9k
I believe UnifiedGenotyper is a locus walker that sets `emitEmptySites() = False`. As such you will not see entries for positions that have…
Comment: Problem in getting geo file through GEOQUERY by anasjamshed ▴ 120
Basically this is my code: if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager") # # pkgs <- rowna…
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