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1,000 results • Page
2 of 20
Sort: replies
Rank
Views
Votes
Replies
16
votes
21
replies
2.2k
views
Why there are different hit for a same gene in different species
gene
blast
ortholog
paralog
7.6 years ago by
Farbod
★ 3.4k
0
votes
21
replies
1.0k
views
Expression analysis of LncRNA from RNA-seq data
expression
lncrna
10 weeks ago by
analyst
▴ 30
9
votes
20
replies
4.2k
views
Solve SAM issues flagged by Picard's ValidateSamFile
Picard
SAM
updated 13 months ago by
Ram
43k • written 5.7 years ago by
marongiu.luigi
▴ 710
8
votes
20
replies
2.5k
views
Converting runpsipred Script to Work on Windows OS
psipred
windows
updated 23 months ago by
Ram
43k • written 5.7 years ago by
Bara'a
▴ 270
8
votes
20
replies
2.6k
views
Getting read depth for normal and tumour
R
WGS
vcf
5.1 years ago by
zizigolu
★ 4.3k
5
votes
20
replies
8.3k
views
How to plot ChIP-seq Density vs Distance from TSS using Homer annoted files
ChIP-Seq
homer
7.7 years ago by
varsha619
▴ 90
6
votes
20
replies
6.4k
views
filling of missing genotype information in merged variant call vcf file
SNP
5.9 years ago by
princy149
▴ 80
0
votes
20
replies
1.6k
views
Rockhoppper - Suspiciously low percentage of perfectly aligned reads
Rockhopper
RNA-seq
6 months ago by
langziv
▴ 50
22
votes
20
replies
2.5k
views
what is the prefered strategy to treat with blast-less transcriptomes from RNA-seq
blast
RNA-Seq
genome
gene
updated 12 months ago by
Ram
43k • written 7.8 years ago by
Farbod
★ 3.4k
8
votes
20
replies
3.0k
views
Why does cufflinks split this transcript?
RNA-Seq
cufflinks
assembly
6.3 years ago by
corend
▴ 70
5
votes
20
replies
4.1k
views
DiscoSnp Segmentation fault
snp
discosnp
updated 19 months ago by
Ram
43k • written 8.7 years ago by
Hans
▴ 140
4
votes
20
replies
1.9k
views
How can I count aminoacid residues from a HUGE compressed fasta file?
sequence
4.3 years ago by
schlogl
▴ 160
2
votes
20
replies
2.3k
views
The number of SVs called by `vg call` is much smaller than the number of SVs in the VCF used to construct the graph
vg
7 months ago by
Maxine
▴ 40
6
votes
19
replies
2.8k
views
Clustering for Single-cell RNA-seq Data
clustering
R
single-cell
4.7 years ago by
aloke205
▴ 40
3
votes
19
replies
1.5k
views
Systematic errors at the end and beginning of reads in NGS panels
NGS
error
panels
sequencing
updated 9 months ago by
Asaf
10k • written 9 months ago by
captainlabman
▴ 20
9
votes
19
replies
2.3k
views
There are any way to use a script for feed emboss with fasta sequence?
sequence
4.3 years ago by
schlogl
▴ 160
6
votes
19
replies
1.7k
views
Fastq header modification
sequence
next-gen
updated 6.1 years ago by
Ram
43k • written 6.1 years ago by
Guillaume
• 0
0
votes
19
replies
1.9k
views
scatterplot in R
microarray
expression
gene
updated 18 months ago by
Ram
43k • written 19 months ago by
bioinformatics
▴ 40
5
votes
19
replies
1.7k
views
how I can come up with a permanent error
R
software error
7.0 years ago by
zizigolu
★ 4.3k
15
votes
19
replies
1.9k
views
trimmomaric command for a fasta file?
trimmomatic
updated 6.0 years ago by
Ram
43k • written 6.0 years ago by
Nadin.asal
• 0
18
votes
19
replies
2.3k
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 17 months ago by
Ram
43k • written 5.3 years ago by
rbkh09
• 0
10
votes
19
replies
3.4k
views
What is a difference between uniprot and 'nr. Non-redundant GenBank...'?
Genebank
blast
UniProt
updated 2.9 years ago by
GenoMax
141k • written 2.9 years ago by
matt
▴ 20
0
votes
19
replies
3.8k
views
Difficulty installing GATKtoolkit
GATK
Variant calling
SNPs
Indels
6.3 years ago by
jaqx008
▴ 110
1
vote
19
replies
861
views
Matching transcriptomic data to clinical data
R
updated 11 weeks ago by
Ram
43k • written 11 weeks ago by
Khadija
▴ 10
0
votes
19
replies
9.5k
views
Skip orientation as there are not enough pairs by bwa mem
whole genome
bwa
paired end sequencing
4.9 years ago by
seta
★ 1.9k
13
votes
19
replies
5.4k
views
bbmerge not joining paired-end reads
bbmerge
alignment
6.4 years ago by
bioplanet
▴ 60
17
votes
19
replies
2.8k
views
Sorting sequences according header
software error
sequence
Assembly
next-gen
7.7 years ago by
Gian77
▴ 60
3
votes
19
replies
6.1k
views
gatk-launch file missing
next-gen
sequencing
software error
updated 5.0 years ago by
finswimmer
16k • written 5.0 years ago by
sruthi
▴ 40
0
votes
19
replies
1.5k
views
best blast strategy: read vs cluster?
alignment
blast
search
strategy
4.4 years ago by
marongiu.luigi
▴ 710
7
votes
19
replies
7.0k
views
[R] Microarray analysis interpreting logFC after makeContrasts
microarray
R
updated 2.2 years ago by
Ram
43k • written 9.5 years ago by
mheiser1
▴ 10
0
votes
19
replies
1.4k
views
map fasts files
RNA-Seq
FASTQ
R
6.2 years ago by
Learner
▴ 280
5
votes
19
replies
4.0k
views
8 follow
Hisat2 aligner problem
RNA-Seq
ChIP-Seq
alignment
Assembly
software error
updated 4 months ago by
ATpoint
82k • written 4.9 years ago by
ta_awwad
▴ 340
0
votes
19
replies
2.8k
views
error related to vcfstats
numpy
snp
vcf
vcfstats
2.7 years ago by
rheab1230
▴ 140
7
votes
19
replies
2.9k
views
mapping script process sleeping on server.
alignment
updated 23 months ago by
Ram
43k • written 9.1 years ago by
lvogel
▴ 30
1
vote
19
replies
2.1k
views
High no feature counts in ht-seq counts
RNA-Seq
sequencing
5.4 years ago by
eozcan
▴ 10
1
vote
19
replies
7.0k
views
Conda install package - different internals
R
software error
updated 4.7 years ago by
Biostar
20 • written 4.7 years ago by
lihe.liu
▴ 30
22
votes
19
replies
3.2k
views
targets of a list of miRNAs
miRNAs
RNA-Seq
DEanalysis
target-prediction
7.5 years ago by
zizigolu
★ 4.3k
4
votes
19
replies
3.1k
views
Use machine learning as classifier
R
rRNA
16S
18S
ITS
updated 6.6 years ago by
Biostar
20 • written 6.8 years ago by
cool.abbecker
▴ 30
2
votes
18
replies
6.2k
views
No differentially expressed genes using DESeq2
RNA-Seq
deseq2
7.4 years ago by
Sumit Paliwal
▴ 40
2
votes
18
replies
2.4k
views
I need help in this
gene
weblems
alignment
updated 21 months ago by
Ram
43k • written 8.3 years ago by
efosa15
• 0
4
votes
18
replies
17k
views
Alignment with BWA and SAMtools
BWA
SAM-file
SAMtools
updated 3.5 years ago by
Biostar
20 • written 5.7 years ago by
Shelle
▴ 30
1
vote
18
replies
2.7k
views
Why big gaps when I use Entrez Eutils to download protein coding sequences.
entrez
eutils
7.7 years ago by
Tom
▴ 40
0
votes
18
replies
1.8k
views
bcl2fastq conversion with specifying exact match of indices
genome
RNA-Seq
sequencing
updated 8 months ago by
GenoMax
141k • written 8 months ago by
Apex92
▴ 280
0
votes
18
replies
1.6k
views
No gene name after annovar vcf file processing
vcf
annovar
4.5 years ago by
valerie
▴ 100
4
votes
18
replies
3.0k
views
Inline barcodes in the reverse reads
barcodes
7.5 years ago by
Picasa
▴ 640
1
vote
18
replies
1.7k
views
Find tissues that are functionally related
tissue
functionally-related
gene-expression
updated 4.6 years ago by
Biostar
20 • written 4.7 years ago by
Natasha
▴ 40
7
votes
18
replies
8.6k
views
9 follow
Cuffmerge running error
RNA-Seq
updated 2.2 years ago by
Ram
43k • written 9.4 years ago by
hana
▴ 190
2
votes
18
replies
1.6k
views
error when running phg create-maf-vcf to build a built practical haplotype graph (v2)
pangenome
phg_v2
plants
PHG
22 days ago by
b.contreras.moreira
▴ 170
14
votes
18
replies
2.2k
views
Clustering in single cell
seurat
single-cell
updated 6 months ago by
e.r.zakiev
▴ 200 • written 6 months ago by
Chris
▴ 260
5
votes
18
replies
6.7k
views
EnhancedVolcano plot error: Log2foldchange is not numeric!
R
EnhancedVolcano
4.4 years ago by
michelle.piquet
▴ 60
1,000 results • Page
2 of 20
Recent Votes
What are Tiles in Sequencing
What are Tiles in Sequencing
Answer: How to trim transcripts using information from NCBI contamination screen report
Difference Between "Mate Pair" And "Pair-End"
Difference Between "Mate Pair" And "Pair-End"
Comment: To get p-values for the TPM
Comment: HaplotypeCaller - only SNPs
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Comment: Is it possible to get a list of representative genomes from a past RefSeq releas
by
Bertalan_Takacs
▴ 90
Thanks! I've already tried looking through these files, I need release 83. I am trying to find this information in the .catalog file of the…
Answer: Is it possible to get a list of representative genomes from a past RefSeq releas
by
GenoMax
141k
Possibly. You will need to know the RefSeq release version. Check in this directory: https://ftp.ncbi.nlm.nih.gov/refseq/release/release-ca…
Comment: How to convert plink files to Hapmap Format
by
bk11
★ 2.3k
Hey, can you please show me a few lines of your phenotype updated .fam file? I m seeing there are 7 columns in it, that might me the proble…
Comment: PCA plot (Suggestions Needed)
by
jkim
▴ 170
How much variance were explained by PC1 and PC2? It doesn't look like that the largest source of variation came from the genotype differenc…
Comment: How to trim transcripts using information from NCBI contamination screen report
by
Lada
▴ 30
Thank you and yes, I agree going step back is the best option but I am in a hurry at the moment so I just need to stick to the transcriptom…
Comment: How to convert plink files to Hapmap Format
by
Sofia
• 0
Thank you so much for helping me out! I did the steps you mentioned but still got the same issue as shown in the snapshot ![enter image des…
Comment: different FeatureCounts output for the same data
by
Istvan Albert
100k
Make sure you are using the same version of featureCounts, it has changed how it deals with paired end reads. The exact same command will p…
Comment: Wilcox test using data slot (log normalized count values) of scRNA-seq between t
by
mropri
▴ 150
Thank you, will do Wilcox for now as I only have one control and one treatment, as I get more control and treatment samples, will stick wit…
Comment: Is it Acceptable to Have Uniform Quality Scores in a FASTQ File?
by
Istvan Albert
100k
I think the blog post lines up wit both of our statements. It seems that 2-way binning (pass/fail) already dramatically improves the calls…
Comment: Tax4Fun2 - error
by
drstalinantony28
• 0
You have to follow this step to solve the issue. (Mostly this problem occurs in the Windows version) 1. If you are using R studio in Windo…
Answer: Tax4Fun2 - error
by
drstalinantony28
• 0
You have to follow this step to solve the issue. (Mostly this problem occurs in the Windows version) 1. If you are using R studio in Win…
Comment: different FeatureCounts output for the same data
by
GenoMax
141k
> featureCounts alignment rate is only around 15-20%. You mean assignment rate? It is that low even after allowing for counting of multi-m…
Comment: alignment result
by
GenoMax
141k
> 20386810 (88.67%) aligned concordantly exactly 1 time This result is fine.
Comment: To get p-values for the TPM
by
ATpoint
82k
Seconding that. Just use established pipelines, tximport => DESeq2, get your stats and call it a day. Custom pipelines paired with little e…
Comment: Should I remove unlocalized scaffols in reference genome before alignment?
by
njornet
▴ 20
I don't want reads incorrectly aligned to these scaffolds and loose information of relevant regions, but as you said that probably won't ha…
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