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5
votes
1
answer
97
views
1
answer
should FASTA files be sorted before indexed with SAMtools?
fasta sort samtools index written 23 days ago by Timze W • 20 • updated 23 days ago by finswimmer ♦ 6.2k
1
vote
2
answers
698
views
2
answers
Calculating Average Amino Acid Identity (AAI) using CompareM
sort ani checkm comparem aai written 7 months ago by charles.bridges • 70
2
votes
0
answers
165
views
0
answers
Significant Difference of the File Size between csorted and nsorted BAM file
compress nsort samtools sort csort sort written 8 weeks ago by Shicheng Guo • 6.9k
3
votes
1
answer
205
views
1
answer
sorting a BAM file
bam sort written 12 weeks ago by Bogdan • 660 • updated 12 weeks ago by Philipp Bayer ♦ 5.7k
2
votes
0
answers
173
views
0
answers
sort the homo sapiens genes by chromosome with Unix command lines
gene sort written 4 months ago by Huichen03 • 10
1
vote
1
answer
267
views
1
answer
Issue while sorting a file
inconsistency trouble sort written 4 months ago by ricfoz • 20 • updated 4 months ago by drkennetz • 350
4
votes
1
answer
3.5k
views
1
answer
Sorting with vcftools for tabix gone wrong
vcf tabix sort vcftools index written 4.1 years ago by axelwilhelm • 100 • updated 5 months ago by Biostar ♦♦ 20
3
votes
1
answer
439
views
1
answer
Samtools sort error with a bam file
bam samtools rna-seq sort written 6 months ago by Bioinfo • 270 • updated 6 months ago by Devon Ryan ♦ 85k
2
votes
1
answer
358
views
1
answer
How to sort an interleaved fastq file by the barcode (BX:Z:) from the header
barcode header interleaved fastq sort written 7 months ago by guillepalou4 • 0 • updated 7 months ago by Pierre Lindenbaum ♦ 113k
5
votes
1
answer
415
views
1
answer
Sorting my .bam with samtools produces differences in the fastq files generated afterwards
fastq next-gen samtools bam sort written 7 months ago by guillepalou4 • 0 • updated 7 months ago by Devon Ryan ♦ 85k
2
votes
0
answers
306
views
0
answers
Sorting file by column, with missing values
sort glimmer awk written 8 months ago by oars • 150
2
votes
1
answer
857
views
1
answer
How to specify the sort based on name in samtools sort?
htseq bam samtools rna-seq sort written 10 months ago by anc.informatics • 0 • updated 10 months ago by finswimmer ♦ 6.2k
4
votes
1
answer
1.8k
views
1
answer
Samtools view command, Exec format error while trying to view a human chromosome region
exec format error region view samtools sort written 11 months ago by ricfoz • 20 • updated 11 months ago by Hussain Ather • 880
4
votes
3
answers
571
views
5 follow
3
answers
unique list based on multiple column
awk sort written 11 months ago by Sam • 70 • updated 11 months ago by aka001 • 180
4
votes
1
answer
732
views
1
answer
featuresCount order sam file?
gtf featurescount rna-seq sort written 14 months ago by noeD • 70 • updated 14 months ago by h.mon ♦ 20k
2
votes
0
answers
834
views
0
answers
samtools sort stuck during merging
next-gen samtools bamtools sort written 15 months ago by Carlo Yague • 4.3k
22
votes
1
answer
20k
views
8 follow
1
answer
samtools sorting and indexing
index samtools sort written 15 months ago by ggman • 70 • updated 15 months ago by John ♦ 12k
1
vote
0
answers
541
views
0
answers
sorting bowtie2 results using samtools sort
bowtie2 samtools sort written 15 months ago by ggman • 70
36
votes
8
answers
22k
views
11 follow
8
answers
Efficient And Fastest Way To Sort Large (>100Gb) Bam Files?
picard samtools bam sort written 6.6 years ago by Rm ♦ 7.8k • updated 16 months ago by cmdcolin • 900
6
votes
1
answer
673
views
1
answer
Samtools sorting by read names vs. chromosomal coordinates
alignment samtools sort written 16 months ago by ropolocan • 450
3
votes
3
answers
1.3k
views
5 follow
3
answers
Trouble with bedtools groupby - not summarizing by columns
bedtools groupby bam sort written 22 months ago by yarmda • 0 • updated 17 months ago by Eichan • 10
81
votes
5
answers
43k
views
23 follow
5
answers
Is My Bam File Sorted ?
sequencing next-gen bam sort written 7.7 years ago by Pierre Lindenbaum ♦ 113k • updated 18 months ago by martin.triska • 90
21
votes
6
answers
8.1k
views
9 follow
6
answers
Remove duplicates in fasta file based on ID
fasta sed sort written 3.4 years ago by oliver.bayfield • 100 • updated 20 months ago by Eslam Samir • 100
1
vote
1
answer
833
views
1
answer
Is there a way to tell PLINK and VCFtools to sort the samples in a particular order?
bed vcftools plink ped sort written 21 months ago by beausoleilmo • 190 • updated 21 months ago by chrchang523 ♦ 3.9k
0
votes
0
answers
632
views
0
answers
Allele frequencies sorted IGV visualisation
allele frequency igv af sort written 22 months ago by Palani Kannan • 40
5
votes
0
answers
1.1k
views
0
answers
Sort fastq file by coordinate
fastq alignment bam sort written 2.0 years ago by Beñat • 20 • updated 22 months ago by Biostar ♦♦ 20
10
votes
4
answers
2.2k
views
4
answers
Script to sort bam file not working
bam samtools unix blast sort written 23 months ago by emth4657 • 10 • updated 23 months ago by Santosh Anand • 4.0k
3
votes
2
answers
853
views
2
answers
Custom sam sort
bam sam rna-seq sort written 2.2 years ago by thomas.smith2 • 90
0
votes
1
answer
805
views
1
answer
a problem when ran vcf-sort
vcf dict sort written 2.2 years ago by zengtony743 • 70
2
votes
1
answer
773
views
1
answer
Samtools Sort Error
bam samtools sort written 2.3 years ago by Valeria • 10
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