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1,000 results • Page
5 of 20
Sort: replies
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Views
Votes
Replies
2
votes
34
replies
6.8k
views
How to install pip on HPC server
software error
6.3 years ago by
Bioinfonext
▴ 460
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
80
votes
34
replies
5.3k
views
11 follow
Forum:
Authorship issues- how to resolve?
authorship
updated 16 months ago by
Ram
43k • written 8.9 years ago by
datanerd
▴ 520
16
votes
34
replies
4.8k
views
7 follow
GC percent detection for several number of genes
GC%
large number of genes
7.1 years ago by
nazaninhoseinkhan
▴ 520
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
Ram
43k • written 11.1 years ago by
Cyriac Kandoth
6.0k
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
Ram
43k • written 9.4 years ago by
kandoigaurav
▴ 150
12
votes
34
replies
5.1k
views
Hidden Markov Models Within Sequence Analysis -- Dispelling Misconceptions + Fixing Explanations
sequencing
updated 12.1 years ago by
Fabian Bull
★ 1.3k • written 12.6 years ago by
Delinquentme
▴ 200
41
votes
34
replies
17k
views
10 follow
Best tool for variant calling
SNP
genome
alignment
next-gen
updated 5.5 years ago by
claire
• 0 • written 6.0 years ago by
williamsbrian5064
▴ 510
15
votes
34
replies
12k
views
Improving efficiency of awk for large files
awk
updated 18 months ago by
Ram
43k • written 8.8 years ago by
AW
▴ 350
65
votes
34
replies
27k
views
20 follow
Phylogenetic Analysis Of Whole Genomes
phylogenetics
tree
updated 2.2 years ago by
Ram
43k • written 13.8 years ago by
Aparna
▴ 130
30
votes
34
replies
6.8k
views
enrichment of gene set with enrichR
enrichR
RNA-Seq
R
updated 6.2 years ago by
WouterDeCoster
47k • written 6.2 years ago by
bikash2510
▴ 30
172
votes
34
replies
26k
views
29 follow
Recommend Your Favorite Introductory "R In Bioinformatics" Books And Resources
r
books
bioconductor
updated 5 months ago by
Ram
43k • written 14.1 years ago by
Michael
54k
54
votes
34
replies
4.9k
views
13 follow
Forum:
Should We Release Database Dumps Of All Questions On Biostar?
meta
biostars
updated 14 months ago by
Ram
43k • written 13.4 years ago by
Istvan Albert
100k
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 2.0 years ago by
Ram
43k • written 9.2 years ago by
Mo
▴ 920
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
103
votes
34
replies
114k
views
23 follow
How To Split A Bam File By Chromosome
bam
updated 3 months ago by
Ram
43k • written 11.9 years ago by
GPR
▴ 390
70
votes
33
replies
17k
views
18 follow
Choosing Random Set Of Seqs From Larger Set
random
fasta
updated 2.0 years ago by
Ram
43k • written 12.1 years ago by
razor
▴ 190
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
Ram
43k • written 5.8 years ago by
Rox
★ 1.4k
298
votes
33
replies
108k
views
25 follow
Tutorial:
Cheat Sheet For One-Based Vs Zero-Based Coordinate Systems
coordinates
updated 14 months ago by
Ram
43k • written 10.5 years ago by
Obi Griffith
20k
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
Ram
43k • written 13.8 years ago by
Kyle
▴ 60
12
votes
33
replies
3.2k
views
Missing sequences in local NT database
nt
blast
ncbi
blastdbcmd
updated 5.6 years ago by
lieven.sterck
15k • written 5.6 years ago by
Prakki Rama
★ 2.7k
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
carlopecoraro2
★ 2.5k • written 10.7 years ago by
Eric Normandeau
11k
27
votes
33
replies
3.8k
views
7 follow
Forum:
Biostars question catagories
statistics
biostars
meta
updated 13 months ago by
Ram
43k • written 7.5 years ago by
John
13k
29
votes
33
replies
8.2k
views
12 follow
getBM error while using bioMart
biomart
getBM
ensembl
updated 3.6 years ago by
user17394
• 0 • written 3.6 years ago by
MatStat
▴ 160
143
votes
33
replies
30k
views
20 follow
C/C++ Libraries For Bioinformatics?
c
c
updated 5.1 years ago by
chernouhov sergey
▴ 50 • written 13.9 years ago by
User 59
13k
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
Hussain Ather
▴ 990 • written 6.4 years ago by
Lila M
★ 1.2k
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
Jrbeaman
▴ 30 • written 13.0 years ago by
Lyco
★ 2.3k
50
votes
33
replies
55k
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
Kevin Blighe
87k • written 7.8 years ago by
ta_awwad
▴ 340
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
Michael
54k • written 12.6 years ago by
Rubal
▴ 350
138
votes
33
replies
66k
views
19 follow
VCF files: Change Chromosome Notation
vcf
next-gen
sequence
updated 18 months ago by
Ram
43k • written 10.0 years ago by
Quak
▴ 490
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
Khader Shameer
18k • written 13.4 years ago by
Giovanni M Dall'Olio
28k
6
votes
33
replies
2.8k
views
I need to understand this image
phylogenies
updated 7.2 years ago by
Emily
23k • written 7.2 years ago by
eng_samar_zayed
• 0
11
votes
33
replies
17k
views
How we can analyze sanger sequence chromatogram?
SNP
sequencing
alignment
sanger
updated 2.2 years ago by
Ram
43k • written 9.5 years ago by
Elnaaz
▴ 40
16
votes
33
replies
8.5k
views
9 follow
Back-filling missing genotypes in merged VCF
vcf
updated 16 months ago by
Pierre Lindenbaum
161k • written 9.5 years ago by
Katie D'Aco
★ 1.1k
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
88
votes
32
replies
9.6k
views
11 follow
Forum:
Vintage / unconventional pictures for Bioinformatics
history
picture
updated 2.1 years ago by
Ram
43k • written 9.5 years ago by
Pierre Lindenbaum
161k
53
votes
32
replies
13k
views
13 follow
Bio-Javascript?
updated 2.0 years ago by
Ram
43k • written 13.2 years ago by
Lee Katz
★ 3.1k
32
votes
32
replies
8.0k
views
11 follow
Should We Be Using Much More Json In Our Delimited Data Formats?
gff
vcf
updated 13.3 years ago by
Erik Garrison
★ 2.4k • written 13.3 years ago by
Casbon
★ 3.3k
0
votes
32
replies
9.5k
views
DoHeatmap clusters, Seurat pipeline
scRNA-sequencing
3.6 years ago by
Morris_Chair
▴ 360
3
votes
32
replies
3.4k
views
fastqc report for degradome reads
fastqc
adaptor
6.1 years ago by
Sam
▴ 150
93
votes
32
replies
33k
views
26 follow
Linux Distros Best Suited For Bioinformatics?
linux
written 12.3 years ago by
Sat3Lite
▴ 150
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
Palani Kannan
▴ 60 • written 12.8 years ago by
Travis
★ 2.8k
82
votes
32
replies
7.7k
views
13 follow
Forum:
Shall We Go Back To Stackexchange?
meta
updated 14 months ago by
Ram
43k • written 11.4 years ago by
14134125465346445
★ 3.6k
129
votes
32
replies
129k
views
29 follow
Is There A Free Alternative To Ingenuity Pathway Analysis?
network
pathway
updated 2.1 years ago by
Ram
43k • written 13.2 years ago by
Gon
▴ 540
9
votes
32
replies
3.0k
views
Differentially gene expressed analyses of two different samples
RNA-Seq
R
next-gen
rna-seq
updated 7.4 years ago by
EVR
▴ 610 • written 7.4 years ago by
Mehmet
▴ 820
9
votes
31
replies
5.0k
views
6 follow
Clustering Million Points : Transcript Start And End Sites
clustering
updated 12.1 years ago by
Khader Shameer
18k • written 12.1 years ago by
Abhi
★ 1.6k
59
votes
31
replies
4.9k
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 12 months ago by
Ram
43k • written 7.3 years ago by
David Langenberger
11k
89
votes
31
replies
14k
views
23 follow
Best Graphics Gallery Or Blogs For Bioinformatics Use
graphs
visualization
genomics
updated 21 months ago by
Ram
43k • written 12.2 years ago by
John
★ 1.5k
147
votes
31
replies
138k
views
26 follow
Useful Bash Commands To Handle Fasta Files
command-line
fasta
bash
updated 9 months ago by
Ram
43k • written 12.2 years ago by
Anima Mundi
★ 2.9k
17
votes
31
replies
5.7k
views
Finding the best model for expression data (RNA-Seq counts)
RNA-Seq
glm
model fit
regression
updated 5.1 years ago by
i.sudbery
19k • written 5.2 years ago by
User 7754
▴ 250
1,000 results • Page
5 of 20
Recent Votes
Answer: GRCh38.gmap file
Comment: GRCh38.gmap file
Answer: GRCh38.gmap file
Answer: GRCh38.gmap file
Answer: Design matrix Differential expression analysis
A: PCA plot from read count matrix from RNA-Seq
A: PCA plot from read count matrix from RNA-Seq
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Comment: Design matrix Differential expression analysis
by
Gordon Smyth
★ 7.1k
> When is it recommended to use the design <- cbind(Intercept=1,Group=c(-1,-1,-1,1,1,1)) It is not recommended. No such code appears anywh…
Comment: GRCh38.gmap file
by
lorena9132
▴ 10
Hi Mathew, The .txt files provided in the link differ from the .gmap files, but after several attempts, I succeeded in generating the .gma…
Answer: GRCh38.gmap file
by
Mathew
▴ 30
Hi, I have spent some time searching for a GRCH38 map file for you. I have found a certain publication that uses a hg38 genetic map file…
Answer: Association study using SNP data
by
Mathew
▴ 30
Hi, You asked three questions so I will attempt to help the best I can **What should be the optimal GC score cutoff** It sounds li…
Comment: Design matrix Differential expression analysis
by
SHN
▴ 40
Thank you for your explanation. I am working on the cell lines and I am investigating the effect of the treatment on the expression level, …
Answer: Issues with Mixture file when using CIBERSORTx
by
vjanve
• 0
I ran into same issue of "duplicated gene symbol(s)": 1: In CIBERSORTxFractions(sigmatrix = sigmatrix, mixture = mixture, : 22292 dup…
Comment: creating batch colum for batch correction
by
Expert
▴ 10
Thank you for your response. These samples were collected from the same patient at different time points(day 0, 8 and 18) and these are ind…
Comment: creating batch colum for batch correction
by
ATpoint
82k
Not sure I follow. Can you first of all describe which comparisons you want to make, pretending there was no batch effect at all. Write dow…
Comment: Pindel Segmentation Fault Error
by
Ruqaiya
• 0
This the tool still problematic?
Comment: Segmentation error while using a tool
by
Ruqaiya
• 0
Thank you for the advice, i'll keep that in mind.
Comment: Segmentation error while using a tool
by
Ruqaiya
• 0
I am trying to reproduce some bioinformatics data from a research paper-[this paper][1] as i was asked to work on an MRSA bioinfo project, …
Answer: Segmentation error while using a tool
by
Mensur Dlakic
★ 27k
Most likely you didn't do anything wrong. Going by your previous post that you have only 8 GB of RAM, the most likely reason is the lack of…
Comment: Segmentation error while using a tool
by
Thanujay S
• 0
Hey @Ruqaiya! Can you please give more details on why smalt is opted here? According to what I can see, the tool has become obsolete! Why …
Comment: Extracting mutation status from MAF files - TCGA
by
Thanujay S
• 0
Hey! Can you explain the question further? What have you tried?
Comment: Downloading older version of a tool
by
Ruqaiya
• 0
I tried the 2nd option only. I got the files of older version from the author but that version isn't working on my WSL, it's showing Segmen…
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