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1,000 results • Page
1 of 20
Sort: Votes
Rank
Views
Votes
Replies
23
votes
22
replies
40k
views
6 follow
Converting VCF to PLINK .bed binary fileset to check for pedigree errors with KING: How do conversion tools make the PLINK .fam file, without asking …
plink
vcf
fam
gatk
vcftools
updated 6 months ago by
Nicole
• 0 • written 5.1 years ago by
gaelgarcia
▴ 250
22
votes
20
replies
2.1k
views
what is the prefered strategy to treat with blast-less transcriptomes from RNA-seq
blast
RNA-Seq
genome
gene
updated 7 weeks ago by
Ram
39k • written 6.9 years ago by
Farbod
★ 3.4k
20
votes
15
replies
26k
views
8 follow
Converting SNP from chr:pos to rs number using PLINK?
plink
SNP
updated 10 months ago by
Ram
39k • written 7.4 years ago by
dam4l
▴ 190
18
votes
4
replies
8.2k
views
How To Find Rna-Seq Data Of Published Papers?
geo
next-gen
RNA-seq
updated 3 months ago by
Ram
39k • written 9.8 years ago by
user
▴ 930
18
votes
19
replies
1.7k
views
6 follow
Extremely important marker gene has many reads based on IGV viewer but no quantified reads
rna-seq
sequencing
igv
alignment
next-gen
updated 6 months ago by
Ram
39k • written 4.4 years ago by
rbkh09
• 0
18
votes
7
replies
901
views
How to calculate if statistically a variable of a bulk RNA-seq affects the comparison of interest?
DESeq2
Variable
RNA-seq
8 months ago by
Rafael Soler
★ 1.2k
16
votes
8
replies
1.7k
views
8 follow
What are the most important unresolved problems in Bioinformatics?
bioinformatics
updated 7 weeks ago by
Ram
39k • written 6.7 years ago by
chen
★ 2.4k
14
votes
5
replies
2.8k
views
bioinformatics basic training
genome
updated 11 weeks ago by
Ram
39k • written 8.5 years ago by
f.muoghalu
• 0
12
votes
8
replies
699
views
Align 16S sequence to a reference
16S
sequence
alignment
updated 8 months ago by
Matthias Zepper
3.7k • written 8 months ago by
A_heath
▴ 140
12
votes
4
replies
493
views
Annotating TSS: By Transcript or by Gene? Code Validation Help Needed!
genome
bed
transcript
TSS
16 days ago by
Rafael Soler
★ 1.2k
12
votes
13
replies
2.2k
views
Gene Expression and Systems Biology (homework)
gene
homework
updated 5 months ago by
Ram
39k • written 7.9 years ago by
sarathkurichiyil
• 0
11
votes
9
replies
2.1k
views
samtools piping with awk/ bash commands -> Wonky things happen!!!
bash
samtools
awk
updated 5 months ago by
Ram
39k • written 8.0 years ago by
QVINTVS_FABIVS_MAXIMVS
★ 2.5k
10
votes
5
replies
6.5k
views
how to remove asterisk characters from a translated sequences (fasta format)?
sequencing
Assembly
alignment
updated 9 months ago by
Ram
39k • written 7.8 years ago by
seta
★ 1.8k
10
votes
11
replies
8.3k
views
How to adjust my manhattan plot to look better?
qqman
manhattan
R
updated 12 months ago by
Ram
39k • written 8.2 years ago by
SheelS
▴ 40
10
votes
15
replies
5.3k
views
convert fasta/gb to vcf
fasta
vcf
genbank
gff
updated 10 weeks ago by
Ram
39k • written 4.7 years ago by
marongiu.luigi
▴ 680
10
votes
8
replies
1.9k
views
Blast scores...two annotations for the same piece of sequence
alignment
updated 11 months ago by
Ram
39k • written 8.2 years ago by
friasoler
▴ 30
10
votes
6
replies
2.6k
views
which language to use for such a bioinformatics web services infrastructure?
web-services
java
updated 10 weeks ago by
Ram
39k • written 8.0 years ago by
lait
▴ 170
10
votes
1
reply
3.2k
views
RNA-SeQC, EVER-seq, RSeQC and CollectRnaSeqMetrics, which to use and *why*?
RNA-Seq
qc
updated 9 months ago by
Ram
39k • written 8.0 years ago by
Niek De Klein
★ 2.6k
9
votes
4
replies
1.9k
views
[Code] Converte fasta/fa files to fastq
perl
fastq
sed
fasta
updated 9 months ago by
Ram
39k • written 7.5 years ago by
Shicheng Guo
★ 9.3k
9
votes
2
replies
394
views
Answer needed urgently
Deep
updated 8 months ago by
Mensur Dlakic
★ 23k • written 8 months ago by
Deepak
• 0
9
votes
4
replies
5.3k
views
How to analyse normalized read count?
RNA-Seq
R
updated 4 months ago by
Ram
39k • written 8.0 years ago by
pbio
▴ 150
9
votes
1
reply
5.6k
views
Why does MACS2 report multiple records for the same peak region?
ChIP-Seq
macs
macs2
updated 9 months ago by
Ram
39k • written 7.6 years ago by
James Ashmore
★ 3.4k
9
votes
7
replies
853
views
Reference genome location
reference
positions
FASTA
alignment
genome
updated 4 months ago by
barslmn
★ 1.5k • written 5 months ago by
Batel
• 0
9
votes
4
replies
466
views
RNA seq, secreted protein
protein
gene
secreted
updated 5 months ago by
Joe
21k • written 5 months ago by
Rob
▴ 160
9
votes
9
replies
1.7k
views
Which hg38 file?
reference
hg38
NCBI
updated 9 months ago by
appropiate
▴ 80 • written 10 months ago by
amy__
▴ 50
9
votes
20
replies
3.4k
views
Solve SAM issues flagged by Picard's ValidateSamFile
Picard
SAM
updated 10 weeks ago by
Ram
39k • written 4.8 years ago by
marongiu.luigi
▴ 680
9
votes
16
replies
3.0k
views
6 follow
covert SAM to full length fasta
fasta
SAM
updated 10 weeks ago by
Ram
39k • written 4.8 years ago by
marongiu.luigi
▴ 680
9
votes
4
replies
1.5k
views
On which branch in bioinformatics should a cancer researcher focus on ?
cancer
updated 7 weeks ago by
Ram
39k • written 6.8 years ago by
Bilal
▴ 60
8
votes
9
replies
2.6k
views
error in rstudio
csv
matrix
rstudio
updated 8 months ago by
Ram
39k • written 7.8 years ago by
fi1d18
★ 4.2k
8
votes
4
replies
1.7k
views
using different tools to identify differential exprssed genes
rna-seq
RNA-Seq
R
updated 8 months ago by
Ram
39k • written 7.8 years ago by
Anushka
▴ 20
8
votes
9
replies
2.2k
views
6 follow
Big difference in estimated duplicate reads between forward and reverse of paired-end RNA-seq
RNA-Seq
duplication
fastqc
updated 11 months ago by
rohitsatyam102
▴ 690 • written 3.6 years ago by
Eric Lim
★ 2.1k
8
votes
12
replies
2.7k
views
Use BLAST Command Line Applications to run a folder of many sequences against a database
BLAST
updated 10 weeks ago by
Ram
39k • written 21 months ago by
daver.v
▴ 30
8
votes
6
replies
833
views
How to apply bioinformatic in vaccine design?
Vaccine
updated 6 months ago by
Dunois
★ 2.3k • written 6 months ago by
Jean
▴ 50
8
votes
5
replies
11k
views
samtools tview symbols
samtools
updated 6 months ago by
Ram
39k • written 7.9 years ago by
biolab
★ 1.4k
8
votes
5
replies
3.2k
views
Is it possible to guess sequencing platform used based on a FASTQ/BAM file?
BAM
FASTQ
updated 5 months ago by
Ram
39k • written 7.9 years ago by
Andrew
▴ 60
8
votes
13
replies
890
views
Mapped reads not mapping to a real sequence?
bam
sam
samtools
kallisto
3 months ago by
txema.heredia
▴ 70
8
votes
25
replies
2.1k
views
construction of a database
sql
noSQL
neo4j
database
updated 10 weeks ago by
Ram
39k • written 2.0 years ago by
Debut
▴ 20
8
votes
11
replies
1.3k
views
using STAR instead of HISAT2
STAR
updated 10 months ago by
Ram
39k • written 10 months ago by
Chris
▴ 100
8
votes
2
replies
6.1k
views
Differential gene expression analysis in Python
python
R
updated 3 months ago by
Ram
39k • written 19 months ago by
Leendert
▴ 30
8
votes
3
replies
618
views
Package installation error using Bioconda
antismash
Bioconda
5 months ago by
A_heath
▴ 140
8
votes
3
replies
5.0k
views
Bioinformatics project for a beginner
projects
updated 10 months ago by
Ram
39k • written 7.5 years ago by
dharshank.1096
▴ 30
7
votes
7
replies
4.4k
views
RNA-Seq time series analysis using a DESeq2 spline approach yields far too many significant genes
splines
DESeq2
time-series
RNA-Seq
updated 1 day ago by
Ram
39k • written 4.4 years ago by
stu111538
▴ 80
7
votes
4
replies
1.3k
views
So many Zeros (read counting)_NGS sequence analysis with R / Bioconductor: RNA-Seq workflow
alignment
RNA-Seq
R
updated 11 weeks ago by
Ram
39k • written 4.9 years ago by
healing80
• 0
7
votes
2
replies
3.1k
views
Counting reads for gene transcripts with overlapping loci
RNA-Seq
gene
R
updated 4 months ago by
Ram
39k • written 8.0 years ago by
Ruet
▴ 70
7
votes
16
replies
2.1k
views
Insert size selection for RNASeq data: does it make sense?
RNA-Seq
sequencing
updated 9 weeks ago by
Ram
39k • written 5.6 years ago by
Matteo Schiavinato
★ 3.6k
7
votes
3
replies
745
views
Using a Docker image with ensembl-vep
Linux
ensembl-vep
Docker
updated 5 months ago by
barslmn
★ 1.5k • written 5 months ago by
langziv
▴ 30
7
votes
10
replies
1.3k
views
Ubuntu 20.04 Crash
Ubuntu
updated 3 months ago by
Ram
39k • written 16 months ago by
bala
• 0
7
votes
8
replies
3.4k
views
remove duplicated entries from BLAST result file
blast
alignment
updated 5 months ago by
Ram
39k • written 8.0 years ago by
Kumar
▴ 160
7
votes
8
replies
2.4k
views
Discrepency between number of reads tophat
RNA-Seq
tophat
software-error
updated 8 months ago by
Ram
39k • written 7.8 years ago by
mbio.kyle
▴ 380
7
votes
8
replies
1.7k
views
How can we time a recent gene duplication event using (neutral?) DNA mutations as molecular clock?
molecular-clock
gene-duplication
phylogeny
updated 3 months ago by
Ram
39k • written 8.1 years ago by
xiaofeng.dong12
▴ 20
1,000 results • Page
1 of 20
Recent Votes
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This is the code I ran: Rscript --vanilla snp-pileup-wrapper.R --snp-pileup-path ~/mut_analysis/variant-calling/facets_cnv/ --vcf-file ~/mu…
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the bam are mapped on S288C fasta isn't it ? why would you need another reference ?
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@shenwei356 Thank you so much! Your prompt reply helped me a lot!
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Ambient RNA would have the same cell barcode as a valid cell-containing droplet since the RNA gets partitioned into the droplet with the ce…
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