Limit : all time
all time today this week this month this year
1,000 results • Page 5 of 20
Sort: replies
Rank Views Votes Replies
54
votes
34
replies
5.0k
views
13 follow
Forum: Should We Release Database Dumps Of All Questions On Biostar?
meta biostars
updated 15 months ago by 43k • written 13.5 years ago by 100k
147
votes
34
replies
55k
views
17 follow
Tutorial: Working with MAF files (Mutation Annotation Format) from the TCGA (The Cancer Genome Atlas)
music cancer tcga mutation maf
updated 14 months ago by 43k • written 11.1 years ago by 6.1k
19
votes
34
replies
5.8k
views
6 follow
How can I convert the blast results into a matrix?
perl linux python blast
updated 2.2 years ago by 43k • written 9.5 years ago by ▴ 150
44
votes
34
replies
13k
views
7 follow
Technical replicates in RNAseq
RNA-Seq technical_replicates
2.2 years ago by grant.hovhannisyan ★ 2.6k
65
votes
34
replies
27k
views
20 follow
Phylogenetic Analysis Of Whole Genomes
phylogenetics tree
updated 2.2 years ago by 43k • written 13.8 years ago by ▴ 130
41
votes
34
replies
17k
views
10 follow
Best tool for variant calling
SNP genome alignment next-gen
updated 5.5 years ago by • 0 • written 6.0 years ago by ▴ 520
16
votes
34
replies
12k
views
6 follow
Why am I unable to load my data from a tab separated file into R?
microarray programming R
updated 2.1 years ago by 43k • written 9.3 years ago by ▴ 920
11
votes
34
replies
2.2k
views
De novo transcriptome from PE reads with high multi-mapping rate (Bowtie2)
RNA-Seq read support Assembly bowtie2
3.6 years ago by Dunois ★ 2.5k
2
votes
34
replies
6.8k
views
How to install pip on HPC server
software error
6.3 years ago by Bioinfonext ▴ 460
31
votes
34
replies
7.5k
views
11 follow
Forum: pros- and cons- : programming skills vs. GUI
programming lecture
updated 13 months ago by 43k • written 8.5 years ago by ★ 4.7k
12
votes
34
replies
5.2k
views
Hidden Markov Models Within Sequence Analysis -- Dispelling Misconceptions + Fixing Explanations
sequencing
updated 12.2 years ago by ★ 1.3k • written 12.6 years ago by ▴ 200
30
votes
34
replies
6.8k
views
enrichment of gene set with enrichR
enrichR RNA-Seq R
updated 6.2 years ago by 47k • written 6.2 years ago by ▴ 30
15
votes
34
replies
12k
views
Improving efficiency of awk for large files
awk
updated 18 months ago by 43k • written 8.8 years ago by ▴ 350
80
votes
34
replies
5.4k
views
11 follow
Forum: Authorship issues- how to resolve?
authorship
updated 16 months ago by 43k • written 9.0 years ago by ▴ 520
16
votes
34
replies
4.9k
views
7 follow
GC percent detection for several number of genes
GC% large number of genes
7.1 years ago by nazaninhoseinkhan ▴ 520
103
votes
34
replies
114k
views
23 follow
How To Split A Bam File By Chromosome
bam
updated 4 months ago by 43k • written 11.9 years ago by ▴ 390
12
votes
33
replies
3.2k
views
Missing sequences in local NT database
nt blast ncbi blastdbcmd
updated 5.6 years ago by 15k • written 5.6 years ago by ★ 2.7k
70
votes
33
replies
17k
views
18 follow
Choosing Random Set Of Seqs From Larger Set
random fasta
updated 2.0 years ago by 43k • written 12.2 years ago by ▴ 190
27
votes
33
replies
3.8k
views
7 follow
Forum: Biostars question catagories
statistics biostars meta
updated 13 months ago by 43k • written 7.6 years ago by 13k
10
votes
33
replies
3.9k
views
Looking for a tool like fastq screen but for ONT data
gridion nanopore ont minion
updated 10 months ago by 43k • written 5.8 years ago by ★ 1.4k
298
votes
33
replies
109k
views
25 follow
Tutorial: Cheat Sheet For One-Based Vs Zero-Based Coordinate Systems
coordinates
updated 14 months ago by 43k • written 10.6 years ago by 20k
29
votes
33
replies
8.3k
views
12 follow
getBM error while using bioMart
biomart getBM ensembl
updated 3.6 years ago by • 0 • written 3.6 years ago by ▴ 160
50
votes
33
replies
56k
views
10 follow
I would like to add gene names to a volcano plot obtained from DEseq2
RNA-Seq DEseq2 R
updated 6.0 years ago by 88k • written 7.8 years ago by ▴ 340
27
votes
33
replies
17k
views
high % of reads mapped to multiple loci after STAR mapping
RNA-Seq STAR single-end
updated 6.4 years ago by ▴ 990 • written 6.4 years ago by ★ 1.2k
11
votes
33
replies
4.0k
views
Detect Regions In A List That Are Within 1 Megabase Of Each Other
python snp genomics overlap
updated 12.6 years ago by 54k • written 12.6 years ago by ▴ 350
121
votes
33
replies
39k
views
24 follow
Forum: Where To Look For Quality Bioinformatics Short Courses And Workshops?
Courses
updated 12 months ago by ★ 2.5k • written 10.7 years ago by 11k
16
votes
33
replies
8.5k
views
9 follow
Back-filling missing genotypes in merged VCF
vcf
updated 17 months ago by 161k • written 9.5 years ago by ★ 1.1k
6
votes
33
replies
2.8k
views
I need to understand this image
phylogenies
updated 7.3 years ago by 23k • written 7.3 years ago by • 0
11
votes
33
replies
17k
views
How we can analyze sanger sequence chromatogram?
SNP sequencing alignment sanger
updated 2.3 years ago by 43k • written 9.5 years ago by ▴ 40
143
votes
33
replies
30k
views
20 follow
C/C++ Libraries For Bioinformatics?
c c
updated 5.1 years ago by ▴ 50 • written 13.9 years ago by 13k
41
votes
33
replies
18k
views
10 follow
How To Convert Xml Into A Decent Parseable Format?
xml parsing perl subjective
updated 13.0 years ago by ▴ 30 • written 13.0 years ago by ★ 2.3k
24
votes
33
replies
8.5k
views
Contribute To The Nat Gen Paper "Principles For The Post-Gwas Functional Characterisation Of Risk Loci"
gwas snp
updated 13.4 years ago by 18k • written 13.5 years ago by 28k
48
votes
33
replies
43k
views
16 follow
Extract A Group Of Fasta Sequences From A File
fasta python perl biopython bioperl
updated 2.4 years ago by 43k • written 13.8 years ago by ▴ 60
141
votes
33
replies
67k
views
19 follow
VCF files: Change Chromosome Notation
vcf next-gen sequence
updated 18 months ago by 43k • written 10.1 years ago by ▴ 510
3
votes
32
replies
3.5k
views
fastqc report for degradome reads
fastqc adaptor
6.1 years ago by Sam ▴ 150
53
votes
32
replies
13k
views
13 follow
Bio-Javascript?
updated 2.1 years ago by 43k • written 13.2 years ago by ★ 3.1k
0
votes
32
replies
9.5k
views
DoHeatmap clusters, Seurat pipeline
scRNA-sequencing
3.6 years ago by Morris_Chair ▴ 360
88
votes
32
replies
9.6k
views
11 follow
Forum: Vintage / unconventional pictures for Bioinformatics
history picture
updated 2.2 years ago by 43k • written 9.6 years ago by 161k
9
votes
32
replies
3.0k
views
Differentially gene expressed analyses of two different samples
RNA-Seq R next-gen rna-seq
updated 7.5 years ago by ▴ 610 • written 7.5 years ago by ▴ 820
82
votes
32
replies
7.8k
views
13 follow
Forum: Shall We Go Back To Stackexchange?
meta
updated 14 months ago by 43k • written 11.5 years ago by ★ 3.6k
32
votes
32
replies
8.1k
views
11 follow
Should We Be Using Much More Json In Our Delimited Data Formats?
gff vcf
updated 13.3 years ago by ★ 2.4k • written 13.3 years ago by ★ 3.3k
93
votes
32
replies
33k
views
26 follow
Linux Distros Best Suited For Bioinformatics?
linux
written 12.3 years ago by ▴ 150
129
votes
32
replies
130k
views
29 follow
Is There A Free Alternative To Ingenuity Pathway Analysis?
network pathway
updated 2.1 years ago by 43k • written 13.2 years ago by ▴ 540
153
votes
32
replies
8.6k
views
23 follow
Picking A Programming Language And Where To Begin
programming next-gen sequencing c subjective
updated 12.3 years ago by ▴ 60 • written 12.8 years ago by ★ 2.8k
10
votes
32
replies
3.8k
views
6 follow
Why my CD31+ endothelial cells RNAseq didn't express CD31?
CD31 HISAT2 endothelialcells Stringtie RNAseq
3.0 years ago by Youyy • 0
9
votes
31
replies
5.0k
views
6 follow
Clustering Million Points : Transcript Start And End Sites
clustering
updated 12.1 years ago by 18k • written 12.1 years ago by ★ 1.6k
59
votes
31
replies
5.0k
views
12 follow
News: Example of how bioinformaticians can publish in Scientific Reports (by nature publishing group) using publicly available NGS data
publication NGS
updated 13 months ago by 43k • written 7.4 years ago by 11k
11
votes
31
replies
14k
views
6 follow
How to concatenate multiple fasta file
sequence genome
updated 11 months ago by • 0 • written 5.8 years ago by ▴ 50
17
votes
31
replies
5.8k
views
Finding the best model for expression data (RNA-Seq counts)
RNA-Seq glm model fit regression
updated 5.2 years ago by 19k • written 5.2 years ago by ▴ 250
13
votes
31
replies
3.9k
views
Feature extraction from DNA sequence
snp machine learning deep learning
updated 5.2 years ago by ▴ 180 • written 5.5 years ago by ▴ 150
1,000 results • Page 5 of 20
Recent Votes
A: Best de novo assembler for insect genome ?
Comment: sci-RNA-seq
The Biostar Herald for Monday, May 13, 2024
Answer: Finding variants within a subset of a BAM file
Answer: Extracting only 4-fold degenerate sites from gene sequences/alignments?
Answer: Extracting only 4-fold degenerate sites from gene sequences/alignments?
Answer: Help with IGV abbreviation
Recent Locations • All
United Kingdom, 1 minute ago
Turkey, 2 minutes ago
Oviedo, 2 minutes ago
United States, 2 minutes ago
United States, 3 minutes ago
United States, 4 minutes ago
Cambridge, MA, 7 minutes ago
Recent Awards • All
Popular Question to Sofia • 0
Popular Question to jen ▴ 10
Popular Question to nitinra ▴ 50
Scholar to Pierre Lindenbaum 161k
Scholar to Ram 43k
Popular Question to bioinfo ▴ 150
Popular Question to waqaskhokhar999 ▴ 160
Recent Replies
Comment: Genome Visualization Tools by GenoMax 142k
@cmdcolin has a great list here: https://github.com/cmdcolin/awesome-genome-visualization
Answer: RSeQC : infer_experiment.py Error: Could not retrieve index file by Trivas ★ 1.7k
You need to have indexed your bam/sam file using `samtools index`
Answer: Using ggplotly in R by jared.andrews07 ★ 16k
The simple answer is to plot it natively with plotly rather than use `ggplotly`. See [this stackoverflow answer](https://stackoverflow.com/…
Comment: Why does assigning genes with biomart give me different values than using a tran by GenoMax 142k
According to HUGO there is only one [**ZSCAN2 gene**][1] and it points to the first Ensembl gene ID (ENSG00000176371). Ensembl is annotatin…
Answer: RNAseq RNA content by noodle ▴ 580
There are many tools for this. I recommend [gatk (picard) CollectRnaSeqMetrics][1] or alternatively [RSeQC][2] and then run [multiqc][3…
Comment: Where to get the following bed file? by wyuan37 • 0
Hi, I emailed them and did get the bed file! Thank you so much.
Comment: Where to get the following bed file? by wyuan37 • 0
Thanks! Super helpful.
Answer: Post-imputation QC for input into GWAS analyses by LauferVA 4.2k
1. Imputation algorithms will output log files indicating, among other things, accuracy of imputation. We can't comment on specifics as we …
Comment: Using Cutadapt to trim adapters from paired-end small RNA sequence data by GenoMax 142k
You can simply ignore read 2. It is not adding any information since your small RNA's are going to be small and were completely sequenced b…
Comment: Overlapping Ranges within Granges object by ntsopoul ▴ 60
does this work with a single .bed file?
Comment: Finding variants within a subset of a BAM file by ramiro.barrantes • 0
Actually, I found a solution in downloading "bam slices" from TCGA ([https://docs.gdc.cancer.gov/API/Users_Guide/BAM_Slicing/][1]) , which …
Comment: Overlapping Ranges within Granges object by ntsopoul ▴ 60
![enter image description here][1]Here is some representative data and an image in igv of one gene. I have loaded the .bed file in igv. As …
Answer: RNAseq RNA content by ntsopoul ▴ 60
I guess he/she means raw RNA. Roughly 2% of all RNA is mRNA the rest is rRNA. I think the first thing you need to figure out is with which …
Comment: RNAseq RNA content by ATpoint 82k
What is "row RNA"?
Comment: Overlapping Ranges within Granges object by ATpoint 82k
I would probably collapse overlapping regions with `reduce` to create the second GRanges. Can you add some representative data? Using dput?
Traffic: 2571 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6