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1,000 results • Page
4 of 20
Sort: replies
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Views
Votes
Replies
5
votes
16
replies
2.7k
views
a lot of OTUs wth no reference
16S
6.6 years ago by
agata88
▴ 870
9
votes
16
replies
3.9k
views
6 follow
covert SAM to full length fasta
fasta
SAM
updated 13 months ago by
Ram
43k • written 5.7 years ago by
marongiu.luigi
▴ 710
13
votes
16
replies
7.3k
views
6 follow
Confused about how to generate a consensus sequence after bwa
bwa
samtools
mpileup
5.4 years ago by
DNAngel
▴ 250
7
votes
16
replies
2.8k
views
Insert size selection for RNASeq data: does it make sense?
RNA-Seq
sequencing
updated 13 months ago by
Ram
43k • written 6.6 years ago by
Matteo Schiavinato
★ 3.6k
5
votes
16
replies
6.3k
views
Remove duplicate lines based on specific columns
r
python
intersect
reads
updated 5.6 years ago by
Ram
43k • written 5.6 years ago by
dzisis1986
▴ 70
7
votes
16
replies
3.7k
views
How do I get a GFF file
snp
4.9 years ago by
apl00028
▴ 90
0
votes
16
replies
4.6k
views
Issue using MaSuRCA-3.2.6
Assembly
assembler
updated 5.7 years ago by
Biostar
20 • written 5.9 years ago by
Chvatil
▴ 130
15
votes
16
replies
1.8k
views
ncbi error report log for validate fastq issue
sra-tools
updated 7 months ago by
GenoMax
142k • written 7 months ago by
1769mkc
★ 1.2k
4
votes
16
replies
6.1k
views
How to count occurrence of numbers in text files using phython
python
excel
counting
writelines
7.3 years ago by
Kachibunny
• 0
0
votes
16
replies
2.9k
views
How to convert ncbi gff file to ensembl gff format
bcftools
gff
updated 13 months ago by
Ram
43k • written 20 months ago by
yoser4
▴ 10
3
votes
16
replies
4.1k
views
GC content of 10x Genomics
fastqc
10x
GC content
updated 3.8 years ago by
Eugene A
▴ 180 • written 5.1 years ago by
Assa Yeroslaviz
★ 1.8k
14
votes
16
replies
2.0k
views
Why are some mapped reads not mapped completely?
RNA-Seq
mapping
updated 3.5 years ago by
lieven.sterck
15k • written 3.5 years ago by
utsafar
▴ 80
5
votes
16
replies
2.7k
views
How to extract intron counts from total RNA Sequencing?
featurecounts
RNAseq
htseq
STAR
18 months ago by
PK
▴ 130
1
vote
16
replies
7.1k
views
After sorting bam file not able to index ?
alignment
next-gen
updated 5.2 years ago by
Biostar
20 • written 5.4 years ago by
sunnykevin97
▴ 980
0
votes
16
replies
4.3k
views
Count read with summarizeOverlaps result 0 for all sample
RNA-Seq
updated 22 months ago by
Ram
43k • written 9.1 years ago by
bharata1803
▴ 560
7
votes
16
replies
21k
views
featureCounts: Low percentage of assigned fragments
RNA-Seq
rna-seq
7.8 years ago by
aggregatibacter
▴ 180
1
vote
16
replies
2.7k
views
Merging fastq files from two experiments
FASTQ
NGS
updated 5.2 years ago by
Biostar
20 • written 5.3 years ago by
zizigolu
★ 4.3k
4
votes
16
replies
4.5k
views
Working with human database in Kraken
RNA-Seq
next-gen
genome
7.9 years ago by
Ron
★ 1.2k
1
vote
16
replies
2.0k
views
Why I see very high mapping percentage, Is this normal or anything wrong in generating libraries?
RNA-Seq
hisat2
samtools
mapping
updated 6.0 years ago by
Biostar
20 • written 6.1 years ago by
Vasu
▴ 770
5
votes
16
replies
4.3k
views
plotting problem with loop in R
R
plot
4.9 years ago by
smyiz
▴ 30
13
votes
16
replies
6.1k
views
Mask or trim primer sequences in Amplicon sequencing
amplicon
mask
trimming
fastq
7.4 years ago by
Paul
★ 1.5k
0
votes
16
replies
3.9k
views
Gff to genbank - feature is missing
DNA
augustus
gff3
genbank
updated 11 months ago by
Ram
43k • written 5.9 years ago by
rororo
▴ 10
4
votes
16
replies
1.0k
views
hisat2 location does not exist
hisat2
updated 11 weeks ago by
Ram
43k • written 12 weeks ago by
Eric
• 0
16
votes
16
replies
3.2k
views
Using DESeq2 results for building a classifier
deseq2
RNA-Seq
differentially expressed genes
6.1 years ago by
bioinfo456
▴ 150
4
votes
16
replies
8.7k
views
STAR - genome indexes generation, genome file not created
RNA-Seq
star
updated 4.7 years ago by
Biostar
20 • written 7.5 years ago by
lu.ne
▴ 70
2
votes
16
replies
1.9k
views
I want to know is it a true method ?
vcf
SNP
realignment
6.2 years ago by
Siavash Salek Ardestani
▴ 20
0
votes
16
replies
5.2k
views
Unable To Delete Tmp Files Of Samtools Sort
samtools
sort
11.0 years ago by
chentong.biology
▴ 50
2
votes
16
replies
10k
views
Tophat with Bowtie2 long index
tophat
bowtie
updated 2.4 years ago by
Ram
43k • written 9.8 years ago by
BDK_compbio
▴ 140
1
vote
15
replies
1.5k
views
How to reduce my dataset in order to plot it?
correlation
igraph
updated 4.8 years ago by
Biostar
20 • written 4.9 years ago by
pablo
▴ 300
0
votes
15
replies
3.3k
views
how to make a .bam file from fastQ for RNA-seq ion torrent with BBmap
RNA-Seq
6.6 years ago by
genya35
▴ 40
7
votes
15
replies
7.2k
views
6 follow
blastn error - NCBI C++ Exception
assembly
blast
alignment
updated 2.1 years ago by
lieven.sterck
15k • written 3.1 years ago by
sunnykevin97
▴ 980
4
votes
15
replies
3.3k
views
Adding Multiple readgroups to BAM file
GATK
ReadGroups
8.1 years ago by
vakul.mohanty
▴ 270
4
votes
15
replies
4.0k
views
Paired-read alignment length from BAM/SAM file
bam
sam
paired-read
alignment
6.9 years ago by
Soumitra Pal
▴ 10
5
votes
15
replies
1.6k
views
NGS Sequencing depths
next-gen
sequencing
gene
7.2 years ago by
sliproach
▴ 10
3
votes
15
replies
3.2k
views
Less and less genes predicted with each iteration of SNAP/MAKER
maker
annotation
snap
gene prediction
genomics
updated 2.7 years ago by
jaredbernard
▴ 30 • written 4.1 years ago by
mrmrwinter
▴ 30
2
votes
15
replies
1.6k
views
How to call all the allele in samples
SNP
6.1 years ago by
Kritika
▴ 260
1
vote
15
replies
2.0k
views
Samtools merge Illumina and PB bam file empty
Illumina
samtools
Bam
PacBio
updated 13 months ago by
Ram
43k • written 3.8 years ago by
talbots
▴ 30
9
votes
15
replies
1.3k
views
Construction of single sequence assembly out of contigs
Contigs
Bacteria
Genome
WGS
5 months ago by
analyst
▴ 50
6
votes
15
replies
2.7k
views
Why can't I reproduce the same heat map
ggplots
R
RNA-Seq
updated 5.8 years ago by
Biostar
20 • written 5.8 years ago by
Za
▴ 140
10
votes
15
replies
6.2k
views
convert fasta/gb to vcf
fasta
vcf
genbank
gff
updated 13 months ago by
Ram
43k • written 5.6 years ago by
marongiu.luigi
▴ 710
20
votes
15
replies
30k
views
8 follow
Converting SNP from chr:pos to rs number using PLINK?
plink
SNP
updated 21 months ago by
Ram
43k • written 8.4 years ago by
dam4l
▴ 200
1
vote
15
replies
1.7k
views
Single Cell RNA Seq
scTransform
Harmony
scRNAseq
Seurat
8 months ago by
scRNA2023
• 0
10
votes
15
replies
1.8k
views
Can't find a variant which suppose must have in a vcf file
variant-calling
bcftools
nf-core
10 months ago by
Chris
▴ 280
5
votes
15
replies
2.2k
views
Is this a valid analysis?
geo
rankprod
analysis
microarray
7.5 years ago by
randalljellis
▴ 90
2
votes
15
replies
4.6k
views
Error when indexing a bcf file
vcf
bcf
5.8 years ago by
Famf
▴ 30
7
votes
15
replies
2.2k
views
very low coverage when mappin genomic DNA
mapping
coverage
DNA
genomic
updated 2.7 years ago by
ATpoint
82k • written 2.7 years ago by
Lila M
★ 1.2k
3
votes
15
replies
2.1k
views
Overlapping regions in a BED file
regions
BED
Sequence
exons
annotation
22 months ago by
Matej
• 0
5
votes
15
replies
1.9k
views
Testing uniform distribution of SNPs across chromosome
uniform
vcf
SNP
5.0 years ago by
misterie
▴ 110
1
vote
15
replies
2.8k
views
Copy Number Analysis on single file
CNV
updated 4.7 years ago by
Kevin Blighe
88k • written 4.7 years ago by
user31888
▴ 130
2
votes
15
replies
1.6k
views
from protein to tRNA combinations
RNA-Seq
rna-seq
written 3.4 years ago by
shiningsky000
• 0
1,000 results • Page
4 of 20
Recent Votes
How To Separate Snp Variants From Indel Variants In The Same Vcf File
Answer: Extracting only 4-fold degenerate sites from gene sequences/alignments?
Comment: Expression analysis of LncRNA from RNA-seq data
Comment: Expression analysis of LncRNA from RNA-seq data
Comment: Expression analysis of LncRNA from RNA-seq data
Comment: Expression analysis of LncRNA from RNA-seq data
Comment: Expression analysis of LncRNA from RNA-seq data
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Recent Replies
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?
Comment: Overlapping Ranges within Granges object
by
ntsopoul
▴ 60
I have one Granges object and not two. Every IRanges entry is the critical region of the gRNA. Can this still work?
Answer: Extracting only 4-fold degenerate sites from gene sequences/alignments?
by
J.
▴ 20
FYI if you also have this problem, this seems to be a pretty good solution: https://github.com/harvardinformatics/degenotate
Comment: Biomart issue, why so few 3'utrs?
by
GenoMax
142k
AFAIK "MANE" project is only for human protein-coding genes. One potential explanation. Out of the 2000 ID's only 125 may be MANE. https:…
Answer: Biomart issue, why so few 3'utrs?
by
i.sudbery
19k
The MANE-select transcripts are pairs of identically annotated transcripts in ReqSeq and Ensembl. The 3' UTR is the region where otherwise …
Comment: sci-RNA-seq
by
ATpoint
82k
Please understand that this impossibly can be answered without any code or plots, or details in general. "Hey my car does not start, it mak…
Comment: Biomart issue, why so few 3'utrs?
by
i.sudbery
19k
Which species is this?
Comment: How to access GWAVA software of data
by
GenoMax
142k
Please email the author (grsr at ebi.ac.uk) and let them know that the link above is not available.
Comment: CNVKIT - unable to produce scatter and diagram pdfs
by
Anitha
• 0
The normal samples is pooled into single reference for cohort. In this I have a doubt, here the normal sample referred as sample which took…
Comment: CNVkit for somatic copy number detection
by
Anitha
• 0
The normal samples is pooled into single reference for cohort. In this I have a doubt, here the normal sample referred as sample which took…
Comment: CNVkit for somatic copy number detection
by
Anitha
• 0
The normal samples is pooled into single reference for cohort. In this I have a doubt, here the normal sample referred as sample which took…
Answer: Overlapping Ranges within Granges object
by
ATpoint
82k
There is no one-hit function in GenomicRanges, but you can stick something together using a combination of `findOverlaps` to first find ove…
Comment: Galaxy StringTie error
by
trkfs
• 0
Hi, I did not encounter any " \ - " characters in the fastq input files, and it doesn't seem to be present in any other files either. Thank…
Comment: How to interpret infinite odds ratio?
by
Lukas
• 0
Thanks you for your answer. But according that links interpretation of inf odds ratio is up to hypothesis of the researcher.So my solution …
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