Hisat2 aligned concordantly exactly 1 time
Webb15 juni 2024 · Check is hisat2 is accessible after loading module. hisat2. This doesn't work because when you load biocontainer (singularity) modules, it doesn't simply add the … Webb28 mars 2024 · HISAT2 mapping. hi everybody, I have a question about discordant alignment results. 23250959 reads; of these: 23250959 (100.00%) were paired; of these: 2462449 (10.59%) aligned concordantly 0 times 19974163 (85.91%) aligned concordantly exactly 1 time. 814347 (3.50%) aligned concordantly >1 times ---- …
Hisat2 aligned concordantly exactly 1 time
Did you know?
Webb11 mars 2016 · [B]hisat2[/B] 33778368 reads; of these: 33778368 (100.00%) were paired; of these: 32551450 (96.37%) aligned concordantly 0 times 564637 (1.67%) aligned concordantly exactly 1 time 662281 (1.96%) aligned concordantly >1 times ---- 32551450 pairs aligned concordantly 0 times; of these: 20823 (0.06%) aligned … WebbHISAT2 is a fast and sensitive alignment program for mapping next-generation sequencing reads (whole-genome, transcriptome, and exome sequencing data) against the general …
WebbI am getting some interesting behavior with the HiSat2 alignment percentages. When the Report alignments tailored specifically for Cufflinks option is checked in galaxy or the …
Webb在参数--fr下：前两种比对就是合理比对，也即：concordantly，后两种比对会成为不合理比对，也即：aligned discordantly，如果两个reads距离太远也会成为不合理比对。. 2. Multiple alignments 多重比对. 2.1.定义：一对reads或一个pair比对上genome的多个位置，也即：aligned >1 times 或是aligned concordantly >1 times，这对reads ... Webb15 juni 2024 · HISAT2 is the fastest spliced mapper currently available. It is part of the new tuxedo suite of tools and it will map RNA-Seq data to the genome as well as identify splice junctions. HISAT2, like BWA and bowtie, uses burrows-wheeler transform (BWT) to compress genomes such that they require very little memory to store.
Webb12600084 (61.89%) aligned concordantly exactly 1 time 2712275 (13.32%) aligned concordantly >1 times ---- 5046482 pairs aligned concordantly 0 times; of these: 57755 (1.14% ... Thanks for the information. I think you will need to understand how Hisat2 defines "concordantly mapped reads".
Webb28 mars 2024 · HISAT2 mapping. hi everybody, I have a question about discordant alignment results. 23250959 reads; of these: 23250959 (100.00%) were paired; of … lada banja lukaWebb24 sep. 2024 · 31445543 (99.75%) aligned concordantly 0 times 2010 (0.01%) aligned concordantly exactly 1 time 77694 (0.25%) aligned concordantly >1 times ---- 31445543 pairs aligned concordantly 0 times; of these: 20260019 (64.43%) aligned discordantly 1 time ---- 11185524 pairs aligned 0 times concordantly or discordantly; … jeans pajama pantsWebb17 apr. 2024 · I ran HiSAT2 three times on one of the samples' pairs of reads with the following options (-fr, ... 5629996 (91.02%) aligned concordantly 0 times 475008 (7.68%) aligned concordantly exactly 1 time 80149 (1.30%) aligned concordantly >1 times ---- 5629996 pairs aligned concordantly 0 times; of these: 1575716 ... jeans paladinoWebbI have an output from Bowtie2 aligner as below: 16075710 reads; of these: 16075710 (100.00%) were unpaired; of these: 375049 (2.33%) aligned 0 times 11575941 … lada benggala in englishWebb30 jan. 2024 · I map pair end read using Hisat2 to genome: [root@psgl hisat2] ... aligned concordantly exactly 1 time 49541361 (49.03%) aligned concordantly >1 times ---- 6478970 pairs aligned concordantly 0 times; of these: 338196 (5.22%) aligned discordantly 1 time ---- 6140774 pairs aligned 0 times concordantly or discordantly; … lada benggalaWebb27 juli 2024 · mapped reads number的另一种计算方法：concordantly exactly 1 time(14853850)，aligned concordantly >1 times(3509724)，aligned concordantly … lada bangkaWebb1001435 (14.95%) aligned >1 times. 88.21% overall alignment rate. the Bowtie2 result summary is divided in 3 sections: Concordant alignment - In your data (4522376 + … lada benggala hijau