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1,000 results • Page
5 of 20
Sort: replies
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Replies
0
votes
15
replies
2.0k
views
compare two NCBI ftp tables
table
NCBI
updated 2.9 years ago by
Ram
43k • written 3.0 years ago by
Debut
▴ 20
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
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
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
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
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
6
votes
15
replies
8.5k
views
Strand specific protocol for bowtie2 alignment
bowtie2
rnaseq
alignment
RNA-Seq
updated 2.5 years ago by
Ram
43k • written 8.5 years ago by
nalandaatmi
▴ 100
0
votes
15
replies
3.3k
views
bcftools multiple samples
snp
4.5 years ago by
evelyn
▴ 230
1
vote
15
replies
3.7k
views
Fastx quality filter
next-gen
RNA-Seq
software error
sequencing
updated 7.4 years ago by
Ram
43k • written 7.4 years ago by
kriti.awasthi23
▴ 10
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
0
votes
15
replies
2.4k
views
pathway analysis tools for xenopus
pathways
omics
xenopus
updated 7.9 years ago by
EagleEye
7.5k • written 7.9 years ago by
mike
▴ 90
3
votes
15
replies
2.8k
views
fastq reads with primers and truseq indexed adapter
sequencing
next-gen
sequence
7.2 years ago by
jomo018
▴ 720
7
votes
15
replies
2.1k
views
cufflinks in loop
rna-seq
RNA-Seq
genome
updated 5.9 years ago by
finswimmer
16k • written 5.9 years ago by
suny.bio
• 0
1
vote
15
replies
4.4k
views
Ultrafast alignment of short sequences to a genome (with up to 5 mismatches!)
genome
alignment
updated 2.4 years ago by
Ram
43k • written 9.7 years ago by
Aurelie MLB
▴ 360
3
votes
15
replies
2.3k
views
RNA Seq Analysis:Feature Counts are zero
RNA-Seq
feature counts
updated 3.9 years ago by
Biostar
20 • written 3.9 years ago by
Genomics
▴ 20
6
votes
15
replies
1.6k
views
Reads partly within an exon
RNA-Seq
6.8 years ago by
benjyrolls
▴ 70
0
votes
15
replies
2.2k
views
Chromosome accession numbers correspond to which chromosome?
bam
chromosome
bed
18 months ago by
amy__
▴ 160
5
votes
15
replies
5.4k
views
Annotation with snpEFF
annotation
vcf
snpeff
extractFields
updated 5.8 years ago by
Biostar
20 • written 5.9 years ago by
NB
▴ 960
8
votes
15
replies
2.0k
views
RNAseq differential expression analysis : no significative FDR but significative GO enrichment
RNA-Seq
differential expression
4.6 years ago by
guillaume.rbt
★ 1.0k
6
votes
15
replies
2.5k
views
processing in strelka2 with multiples bam file in directory
strelka2
updated 2.4 years ago by
aldhairmedico
▴ 70 • written 4.4 years ago by
bioguy24
▴ 230
10
votes
15
replies
6.2k
views
DIAMOND blast imported into MEGAN6 has no taxonomic assignment
blast
MEGAN6
Taxonomy
DIAMOND
7.5 years ago by
Farbod
★ 3.4k
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
0
votes
15
replies
3.2k
views
SAMFormatException: Did not inflate expected amount error
WES
updated 2.5 years ago by
greekkey
▴ 20 • written 2.9 years ago by
smrutimayipanda
▴ 20
2
votes
15
replies
4.2k
views
How to interpret reads mapped to genome from samtools flagstat vs TopHat align_summary.txt ?
RNA-Seq
8.1 years ago by
Vasu
▴ 770
1
vote
15
replies
3.3k
views
How to perform multiple alignment using MAFFT?
genome
alignment
gene
sequence
3.1 years ago by
anikcropscience
▴ 230
2
votes
15
replies
2.2k
views
to get each covariate with PC loading in PCA
RNA-seq
PCA
5.3 years ago by
Grace_G
▴ 20
2
votes
15
replies
4.1k
views
Bowtie2 error :: (ERR): bowtie2-align died with signal 6 (ABRT) (core dumped)
next-gen
SNP
alignment
updated 4.1 years ago by
wm
▴ 560 • written 4.1 years ago by
shrutidabral
▴ 10
2
votes
14
replies
1.1k
views
heatmap for HTSeq data in R
RNA-Seq
updated 3.5 years ago by
Ram
43k • written 3.5 years ago by
Rob
▴ 170
1
vote
14
replies
3.8k
views
Picard MarkDuplicates shows error (removing pcr duplicates)
snp
alignment
sequence
updated 5.5 years ago by
Kevin Blighe
88k • written 5.5 years ago by
ashaneev07
▴ 20
4
votes
14
replies
3.6k
views
6 follow
Cutadapt installation - user defined directory
cutadapt Installation
5.8 years ago by
davide.chiarugi
▴ 20
15
votes
14
replies
3.2k
views
Penalty model of BWA MEM and BOWTIE2?
RNA-Seq
bwa mem
bowtie2
alignment
6.3 years ago by
John
▴ 270
2
votes
14
replies
6.0k
views
Using sam-dump in SRA toolkit to download chr20.bam from NA12878
sratoolkit
sam-dump
updated 10 months ago by
Ram
43k • written 7.1 years ago by
Covux
▴ 10
0
votes
14
replies
3.2k
views
DESeq2 output and GO analysis
RNA-Seq
GO
4.9 years ago by
2nelly
▴ 310
4
votes
14
replies
2.8k
views
VCF file filtration
snp
WGS
VCF
bcftools
vcftools
5.2 years ago by
jaafari.omid
▴ 80
7
votes
14
replies
4.0k
views
Bowtie2 throws error no. 139
bowtie2
ngs
alignment
software error
sequencing
7.2 years ago by
anu014
▴ 190
0
votes
14
replies
2.9k
views
hisat2 alignment showing 0% aligned but sam file is 6GB in size.
hisat2
alignment
updated 2.7 years ago by
Istvan Albert
100k • written 2.7 years ago by
Priyanka
▴ 10
7
votes
14
replies
6.0k
views
transcriptome index for Kalisto
RNA-Seq
updated 7.3 years ago by
Biostar
20 • written 7.5 years ago by
1769mkc
★ 1.2k
4
votes
14
replies
2.7k
views
ATAC-Seq High Unaligned Percentage
atac-seq
updated 6.0 years ago by
Biostar
20 • written 6.1 years ago by
isaac.rstefan
• 0
1
vote
14
replies
2.7k
views
Comparing two variant files
variant
comparison
updated 3.0 years ago by
prasundutta87
▴ 660 • written 3.0 years ago by
shivangi.agarwal800
▴ 120
3
votes
14
replies
1.2k
views
How to extract specific region from multiple bam files and merge the outputs into single bam?
bam
rna-seq
updated 6 months ago by
GenoMax
142k • written 6 months ago by
Vasu
▴ 770
2
votes
14
replies
1.9k
views
Annotating the multi sample vcf file
vcf
annotation
17 months ago by
Peerzada
• 0
3
votes
14
replies
4.0k
views
TopHat Error Qual length differs from seq length
RNA-Seq
Assembly
software error
alignment
updated 5.7 years ago by
h.mon
35k • written 6.5 years ago by
williamsbrian5064
▴ 510
9
votes
14
replies
4.4k
views
Explanation on Paired end single index for RNA seq
RNA-Seq
updated 2.1 years ago by
Ram
43k • written 9.3 years ago by
hothriananya
▴ 70
0
votes
14
replies
3.4k
views
6 follow
HISAT2: an "IndexError: index out of range"
alignment
RNA-Seq
software error
rna-seq
updated 3.7 years ago by
tiancaigg
▴ 30 • written 4.2 years ago by
1713307477
• 0
1,000 results • Page
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Recent Votes
Answer: What does the 'E%' represent in BUSCO results?
Answer: Combine Two Affymetrix Datasets With Same Platform
Comment: Kraken2 database
Comment: How does gene length effect the number of reads mapped
Comment: How does gene length effect the number of reads mapped
Comment: How does gene length effect the number of reads mapped
Comment: How does gene length effect the number of reads mapped
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Answer: What does the 'E%' represent in BUSCO results?
by
Philipp Bayer
8.5k
Ah your edit solved this. 50 BUSCOs contain internal stop codons, indicating they might be erroneous gene models, or the genes themselves a…
Answer: MGLTools does not work in windows 11
by
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• 0
In my case, I did not see iGPU. There is only one option, Intel UHD Graphics. What I need to do?
Comment: What does the 'E%' represent in BUSCO results?
by
Philipp Bayer
8.5k
funny enough i tried the same thing (i've used BUSCO heaps times but never saw the E:! even the manual lists 'C:89.0%[S:85.8%,D:3.2%],F:6.9…
Comment: What does the 'E%' represent in BUSCO results?
by
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142k
According to ChatGPT: In BUSCO, the "E" category represents "End" or "Endof" gene fragments. These are orthologous groups for which the ge…
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by
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• 0
Thank you for the link and details
Comment: Help with IGV abbreviation
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Thank you very much for helping with the details.
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by
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thank you :)
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by
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I found the answer when using bcftools. Is there is a way to do this with FilterVcf? bcftools filter --include '(FMT/AD[0:1])/(FMT/A…
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142k
Those are SAM format fields. Check section 1.4 here: https://samtools.github.io/hts-specs/SAMv1.pdf > 1:2114:12111:13792 That is part of …
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Hi, here is a breakdown of each part that you asked about: **flag 99**: This indicates various properties of the read alignment. In this c…
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Should be possible: https://www.biostars.org/p/430366/ Are you using an older version of `diamond`? Latest versions of `diamond` can use N…
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Hi, Below SNPEff database building error I am getting. "FATAL ERROR: Most Exons do not have sequences!" The headers are correct and sam…
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the last line of SeqIO.write(record.....'fasta') in a for loop will input the the last record into new fasta file and it will only contain …
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