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1,000 results • Page
4 of 20
Sort: replies
Rank
Views
Votes
Replies
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 14 months ago by
Ram
43k • written 20 months ago by
yoser4
▴ 10
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
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
21k
views
featureCounts: Low percentage of assigned fragments
RNA-Seq
rna-seq
7.8 years ago by
aggregatibacter
▴ 180
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
3
votes
16
replies
1.5k
views
How to bring all reads to the same length? Any tool?
Read-length
Bed
updated 10 months ago by
Ram
43k • written 4.3 years ago by
Ankit
▴ 500
3
votes
16
replies
3.5k
views
FastTree trifurcating Root node
alignment
FastTree
Phylogenetic Tree
5.4 years ago by
Moses
▴ 150
9
votes
16
replies
1.5k
views
I am trying to select some reference genome region of a bam file, but got an error
SAMTOOLS
updated 3.8 years ago by
lieven.sterck
15k • written 3.8 years ago by
schlogl
▴ 160
3
votes
16
replies
12k
views
combining z-scores into a single z-score value
excel
R
statistics
updated 11 months ago by
Ram
43k • written 5.2 years ago by
Star
▴ 60
2
votes
16
replies
3.1k
views
Enhancing draft genome using 10X data
10X
draft_genome
Assembly
5.8 years ago by
Mostafa
▴ 20
8
votes
16
replies
1.4k
views
what is the ideal normalistation methods for TCGA gene expression or DNA methylation dtasets?
gene
next-gen
4.3 years ago by
Chaimaa
▴ 260
9
votes
16
replies
1.9k
views
feature extraction from SNPs in R
R
gene
sequence
SNP
5.5 years ago by
bioinfo456
▴ 150
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
7
votes
16
replies
4.0k
views
cutting overrepresented sequences (recognized by fatsqc)
sequencing
genome-sequence
fastqc
genome
sequence
4.1 years ago by
Researcher
▴ 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
3
votes
16
replies
1.6k
views
Problem, getting information only from the last row and not from all the rows
perl
6.1 years ago by
ArusjakGevorgyan
▴ 30
0
votes
16
replies
3.2k
views
Problems with installation of Prodege decontamination software
genome
next-gen
sequencing
sequence
blast
updated 7.3 years ago by
Biostar
20 • written 7.3 years ago by
tans0307
• 0
5
votes
16
replies
2.8k
views
How to extract intron counts from total RNA Sequencing?
featurecounts
RNAseq
htseq
STAR
18 months ago by
PK
▴ 130
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
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
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
4
votes
16
replies
8.8k
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
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
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
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
1
vote
15
replies
6.0k
views
How to Extract Specific Region on Bam file
Nanopore
HG38
Rna-Seq
Genome
updated 2.9 years ago by
Kevin Blighe
88k • written 2.9 years ago by
santos48
▴ 40
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 5.9 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
0
votes
15
replies
2.0k
views
compare two NCBI ftp tables
table
NCBI
updated 3.0 years ago by
Ram
43k • written 3.0 years ago by
Debut
▴ 20
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
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
3.7k
views
Install Lefse in Ubuntu 12
install
lefse
microbiome
5.9 years ago by
goh
▴ 10
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
0
votes
15
replies
2.6k
views
Strategy for generating a consensus sequence for 100 complete bacterial genomes?
consensus seq
mauve
5.9 years ago by
Alec Watanabe
▴ 60
3
votes
15
replies
5.6k
views
Pairwise sequence alignment with Biojava?
sequence-alignment
biojava
java
updated 2.3 years ago by
Ram
43k • written 9.5 years ago by
Bioaln
▴ 360
5
votes
15
replies
2.1k
views
Sample contamination level over 30%
next-gen
6.6 years ago by
haiying.kong
▴ 360
4
votes
15
replies
3.3k
views
Adding Multiple readgroups to BAM file
GATK
ReadGroups
8.1 years ago by
vakul.mohanty
▴ 270
6
votes
15
replies
3.1k
views
Why GSVA returns a matrix with fewer gene-sets?
microarray
GSVA
updated 2.4 years ago by
Christopher Walker
▴ 70 • written 6.2 years ago by
arronar
▴ 280
1,000 results • Page
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Recent Votes
Comment: Overlapping Ranges within Granges object
Answer: Difference between Genotype 0|1 and 1|0 in VCF file?
Answer: how to keep reads in a fasta file based on a seq id list in R?
Answer: The total expressed genes in RNA-Seq data
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Answer: Genome Visualization Tools
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Comment: Overlapping Ranges within Granges object
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you are on to something… if I use reduce to find the “overlaping regions” in a secon GRanges object, what do I do next?
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Thank you Jared for your response. I took a look at the documentation you provided and am trying my best to follow along, but can't seem to…
Comment: Getting the coding_sequence.fasta from the .gff file from the AUGUSTUS gene pred
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8.6k
Right I heard there is an issue since Perl v5.36. You may have better luck using conda. Or the best way is to use the container. Or downgra…
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Thank you so much
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Depends on the context. `TE detection` and `TE identification` could mean the same thing if they refer to presence/absence of TEs. `TE iden…
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by
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43k
Please accept your own answer to mark the post as solved.
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43k
A small educational note: if an answer was helpful, you should upvote it; if the answer resolved your question, you should mark it as accep…
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thanks, it's working now.
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@cmdcolin has a great list here: https://github.com/cmdcolin/awesome-genome-visualization
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You need to have indexed your bam/sam file using `samtools index`
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Hi, I emailed them and did get the bed file! Thank you so much.
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