kbattenb
commented
1 year ago Hi Xiang,
It’s great that people are showing interest in our tool:)
Would you mind telling me what version of UniverSC you are using? (I am assuming it is version 1.2.4) Also, would you mind running the test 10x dataset that we provide to make sure that UnverSC can run without issues?
If it is version 1.2.4, and if 10x dataset does runs without issues, I think I know what may be happening.
Please let me know.
Kai Battenberg
On Jan 18, 2023, at 14:42, XiangLi @.***> wrote:
Dear Kai, Good idea with the program，which can be applicable to split-seq that just what i need. I am having difficulties running the script:
Running preflight checks (please wait)... 11:58:14 [runtime] (ready) ID.SRR.SC_RNA_COUNTER_CS.EXPAND_SAMPLE_DEF 11:58:14 [runtime] (run:local) ID.SRR.SC_RNA_COUNTER_CS.EXPAND_SAMPLE_DEF.fork0.chnk0.main 11:59:06 [runtime] (chunks_complete) ID.SRR.SC_RNA_COUNTER_CS.EXPAND_SAMPLE_DEF Checking sample info... Checking FASTQ folder...
[error] Lanes must be a comma-separated list of numbers.
my command : bash launch_universc.sh -R1 "../raw_data/SRR6750053_S1_L001_R1_001.fastq" -R2 "../raw_data/SRR6750053_S1_L001_R2_001.fastq" -i SRR -r "test/cellranger_reference/refdata-gex-mm10-2020-A" -t "splitseq" -b "whitelists/split-seq_round1_barcodes.txt" "whitelists/split-seq_round2_barcodes.txt" "whitelists/split-seq_round3_barcodes.txt"
if you need, there are the first few rows of the files：
head -n 24 SRR6750053_S1_L001_R1_001.fastq
@SRR6750053.1 1/1 CTATTNAACCCTCTGAGTTTGCCCCTGTTGTGTCCCTGAGCATGTCTGTCTCTTTTCTTGGTCCTT + AAAAA#EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEAEEEEEEEEEEEAEEEEEAEEEEEE @SRR6750053.2 2/1 CACCCNCACTTCCGGAGGTCTTCTCACTTCAATTACCTTAGTCTTGAAAATCTCTTGAGGACATTT + AAAAA#EEE/EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE/EEEEEEEEEEEEEEEEEEEAE @SRR6750053.3 3/1 ATAATNAATAAATCCCAAAAAAAAAAAAAATGAATATTCTAAAGCAAAGGAATAAAAAGAACGTGG + A6AAA#6EAEEEE/EEE/EE/EEEEEEE//<//E/E/////<//A///////////A<//////</ @SRR6750053.4 4/1 GCTCTNGCCTCTCAAGCACGTGGATTTCCTGCTAGTCGTACGCCGATGCGAAACATCTGCCACTCT + AAAAA#EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE @SRR6750053.5 5/1 TGATANAGGAGTCGTACGCCGATGCGAAACATCTGCCACGTGTCCTTCACCGAGGCTAGATCGGAA + AAAAA#EEEAEEEEE/AEEEE6EEEEEEEEEEEEEEEEEEEEEAEEEE/EAEEEEEEEE6AEEEE/ @SRR6750053.6 6/1 ATAGCNCATAAGTAGCAGAACACTGGAAGCTTAGATTTCCCACGTACATCTCGAATGCTCTGGCCT + AAAAA#EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEAEEEEEEEEEEEEEEAEEE
head -n 24 SRR6750053_S1_L001_R2_001.fastq
@SRR6750053.1 1/2 NNGTTCCGGATTGGCTCGTGGCCGATGTTTCGCATCGGCGTACGACTACTATGCAATCAACGTGCTTGAGAGGCCAGAGCATTCGACTATGCAT +
AAAEEEEAEEAAEEEEEE/EEA/6/</A/<6<A<<6E/AE<</<A/<AAAAAEEEE66A6</A</6<AAA/EEAEAAEAAEA6<EEAEAA<E
@SRR6750053.2 2/2 NNGTTTCTTACAATGGAAGTGGCCGCTGTTTCGCATCGGCGTACGACTCAGCGTTAATCCACGTGCTTGAGAGGACAGAGCATTCGAGATCGCA +
/AAEE/EE/EE/EEEAE/EE//E///A///6666/EAAA6/6666/6EAEAEA</<</A/E6/66/6<AA<AE<AE/EE///<AAA/A/A//
@SRR6750053.3 3/2 NNGTGGTTCCAGCACCTCGTGGCCGCTGTTTCGCATCGGCGTACGACTCTACCAAATCCACCTGCTTTAGAGGCCAGAGCAATCGACTATGCAT +
/AAEE/EA/A<EEEEEE/EEAEE6<EAA/66666<EEAAEA6</A////6EAEE///6A///////6/E/</E/<A/<E/</<E6<EA////
@SRR6750053.4 4/2 NNCCGGCGAAGTCGTAGAGTGGCAGCTGTTTCGCATCGGCGTACGACTAGCAGGAAATCCACGTGCTTGAGAGGCCAGAGCCTGTCTCTTATAC +
AAAEEEEEEEEEEEEEE/EE//E6<AAA<66666<EEAEEA6AAAEEEEEEEEEEEEEEEE6<<A6<EEEEEEEEEEEEEAEEEEAEEEEEE
@SRR6750053.5 5/2 NNCCTCGGTGAAGGACACGGGGCAGCTGTTTCGCATCGGCGTACGACTCCTCTATCACTGTCTCTTATACACATCTGACGCTGCCGACGAGCGA +
AAAEAEEEEEEEEEEEE/6E<<E6AEAE/666/6AEA6AE<6A/AAA<EEE</EE/<<<AAA<</<EE/AAA<6<EE<E<A<<AAAE/EEE<
@SRR6750053.6 6/2 NNGTTAAAAGATCATTCCGTGGGCGCTGTTTCGCATCGGCGTACGACTCACCTTACATCCACGTGCTTGAGAGGCCAGAGCATTCGAGATGTAC +
AA/AAA/E/EEAAEEAE/EE/EE//<A//66666/AA6AA<6666/<////<<EE//6<<A6666/66EEAEE/AE<EAE6<EAEE<<E<AE
head -n 24 R22019033_S1_L001_R1_001.fastq
@A01225:473:HG7M5DSX3:1:1101:1371:1016 1:N:0:CAGATC+ATAGAGAG TNATAATACTGGAAATGGGACCTTCTGTCATTGTGATGAGAAAGTAAGTTCATTTAACTTACAGGCAGTCTTGTCCCTTGTAATAACTGCAGCCCAGAATCAATATATTTTTTCAGAGAAAGTTATCCACTCAATTTTTTCTGATTTATA + F#FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFFFFFFFFFF:FFFFFFFFFFFFFFFFFFFFFFFFF:F:F:FFFFFFFFFFFF @A01225:473:HG7M5DSX3:1:1101:3161:1016 1:N:0:CAGATC+ATAGAGAG CNAAAGGATGACATTCCGGGTTTAGTGAGAAACCTTTTCCTCAAAAAATAAAAAAAAAAAAAAAATCTGCTGTCGAATGCTCTGGCCTCTCAAGCACGTGGATTGTATGCGAGTCGTACGCCGATGCGAAACATCGGCCACGGCTACAGG + F#FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFFFFF:FFFFFFFFF,,FFF:FFFFFFFFFFFFFFFFFF:FFFFF:FFFFFFFF,FFFFF:F,FFFFFFFFFFFFFFFF,::,:F:FFF,FFFFFFFFFF @A01225:473:HG7M5DSX3:1:1101:3179:1016 1:N:0:CAGATC+ATAGAGAG TNCATGGGTAAAGGAATCTCAGATGACTTCAGCAAAGGGCCATATTCAAAACTGCTCTCAGAGGGAAAATCTGTTGTCACTGAATTAATGGCCATCACCTGGCCCCCTGCAATCTGTAAGTCATAATAATTCTTGCAAATACTTTTGCAA + F#FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:,F @A01225:473:HG7M5DSX3:1:1101:3215:1016 1:N:0:CAGATC+ATAGAGAG GNGTGTGTGTATGAGGTGAAACAGTTTAATAAAACCTTAGAAAAAAAAAAAAAAATGCGATCTCGAATGCTCTGGCCTCTCAAGCACGTGGATTCTCGGTTAGTCGTACGCCGATGCGAAACATCGGCCACACTTGATGGAGAGCGCACA + F#FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF,FFFFFF:FFFFFFFFFFFFFFFF @A01225:473:HG7M5DSX3:1:1101:3269:1016 1:N:0:CAGATC+ATAGAGAG TNGAAATATTACTTAGTCTTAATAATCTAAGAAGATCTTAAGAGATAACATGAAGGCTTATTTAAACAGTTTGAAAAAGGAAATGAGGAGAAAAGTATTTGTACTGTATAATGGAGGCTGACCAGAGCAGTTTAGGAGATTGTAAAGGGA + :#FFFFFFFFFFFFFFFFFFFFFFFF:FFFFFF:FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:F:FFFFFFFFFFF:FFFFF @A01225:473:HG7M5DSX3:1:1101:3287:1016 1:N:0:CAGATC+ATAGAGAG ANTTAGGCATAGTCGTACGCCGATGCGAAACATCGGCCACTGAACTGGATATGCGGTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAGATCATCTCGTATGCCGTCTTCGGCGTGTAAATGGGGGGGGGGGGGGGGGGGGGGG + F#FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:F,FFF,F::FF,,,,,,F,,,F,,,,,:FFFFFFFFFFFFFFFFFFFFFF
head -n 24 R22019033_S1_L001_R2_001.fastq
@A01225:473:HG7M5DSX3:1:1101:1371:1016 2:N:0:CAGATC+ATAGAGAG GCACTTGAGGAGCACAAGGTGGCCGATGTTTCGCATCGGGCGTACGACTACCTCCAAATCCACGTGCTTGAGAGGCCAGAGCATTCGCGCTGATCTTTTTTTTTTTTTTTGCATTTTATCAGAAAGTTTAATTATAAATCAGAAAAAATT + FFFF,FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFFFFFFFFFFFFF,FFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFFFFFFFFFFFFFFFFFFF:FF:F::F:FFFFFF::F @A01225:473:HG7M5DSX3:1:1101:3161:1016 2:N:0:CAGATC+ATAGAGAG TTGAGAATGCCTGTAGCCGTGGCCGATGTTTCGCATCGGCGTACGACTCGCATACAATCCACGTGCTTGAGAGGCCAGAGCATTCGACAGCAGATTTTTTTTTTTTTTTTATTTTTTGAGGAAAAGGTTTCTCACTAAACCCGGAATGTC + FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFFFFFFF:FFFFFFFFFFFFFFF::FFFFFFFFF,FFFFFFFF:FF,FFFFFFFFFFFFFFFFFFF @A01225:473:HG7M5DSX3:1:1101:3179:1016 2:N:0:CAGATC+ATAGAGAG GGGGAAAAGGAAGAGGAGACAAATTCTGTTGCTACCCTTTCCTATTCCTCTGTGGATGAAACACAAGTCAGAAGTCTCTACGTGAGCTGCAAATCATCTGGCAAGTTTATCTCTTCAGTGCATTCAAGAGAGAGCCAACATAGCAGAAGT + FFFFFFFFFF:FFFFFFFFFFF,FFFFFFFFFFFFFFFFFFFFFFFF:FFFFFFFFFFF:,:FFFFFFFFF:FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFFF:FFFFF:FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FF @A01225:473:HG7M5DSX3:1:1101:3215:1016 2:N:0:CAGATC+ATAGAGAG GTGCGCTCTCCATCAAGTGTGGCCGATGTTTCGCATCGGCGTACGACTAACCGAGAATCCACGTGCTTGAGAGGCCAGAGCATTCGAGATCGCATTTTTTTTTTTTTTTGTAAGGTTTTATTAAACTGTTTCACCTCATACACACACACC + FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFFFFFF:FF:F:FF,FF:::FFFF:FFFFF,FFFFFF:FF,,FFFFF:,:F:FF, @A01225:473:HG7M5DSX3:1:1101:3269:1016 2:N:0:CAGATC+ATAGAGAG TCTCGTCTGCCGCATACAGTGGCCGATGTTTCGCATCGGCGTACGACTACAAGCTAATCCACGTGCTTGAGAGGCCAGAGCATTCGAGTCACTATTTTTTTTTTTTTCAACTACACCTCATTTTCAAACTATTCTCTACAACTTTACTGT + FFFFFFFFFFFFFFFFFFFFFFFFF:FFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFFFFFFFFFFF:FFFFFFFFFFFF,FFFFFF:::F:FFFFFFFFFFFFF,,,F:FF:FFFFF:FFFFFFF::FFF,FFF,F,,FFFFFFFFF @A01225:473:HG7M5DSX3:1:1101:3287:1016 2:N:0:CAGATC+ATAGAGAG GACCGCATATCCAGTTCAGTGGCCGATGTTTCGCATCGGCGTACGACTATGCCTAAATCTGTCTCTTATACACATCTGACGCTGCCGACGAATAGAGAGGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAATTTTTTGAAGCAG + FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:::FFFF,F,:,:,:F
system: shell JOBMODE: local cellranger: 3.0.2 from the 10X genomics
thanks for this tool, and looking forward to your response xiangli
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hibiscuslee
TomKellyGenetics
Dear Kai, Good idea with the program，which can be applicable to split-seq that just what i need. I am having difficulties running the script:
Running preflight checks (please wait)... 11:58:14 [runtime] (ready) ID.SRR.SC_RNA_COUNTER_CS.EXPAND_SAMPLE_DEF 11:58:14 [runtime] (run:local) ID.SRR.SC_RNA_COUNTER_CS.EXPAND_SAMPLE_DEF.fork0.chnk0.main 11:59:06 [runtime] (chunks_complete) ID.SRR.SC_RNA_COUNTER_CS.EXPAND_SAMPLE_DEF Checking sample info... Checking FASTQ folder...
[error] Lanes must be a comma-separated list of numbers.
my command : bash launch_universc.sh -R1 "../raw_data/SRR6750053_S1_L001_R1_001.fastq" -R2 "../raw_data/SRR6750053_S1_L001_R2_001.fastq" -i SRR -r "test/cellranger_reference/refdata-gex-mm10-2020-A" -t "splitseq" -b "whitelists/split-seq_round1_barcodes.txt" "whitelists/split-seq_round2_barcodes.txt" "whitelists/split-seq_round3_barcodes.txt"
if you need, there are the first few rows of the files：
head -n 24 SRR6750053_S1_L001_R1_001.fastq
@SRR6750053.1 1/1 CTATTNAACCCTCTGAGTTTGCCCCTGTTGTGTCCCTGAGCATGTCTGTCTCTTTTCTTGGTCCTT + AAAAA#EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEAEEEEEEEEEEEAEEEEEAEEEEEE @SRR6750053.2 2/1 CACCCNCACTTCCGGAGGTCTTCTCACTTCAATTACCTTAGTCTTGAAAATCTCTTGAGGACATTT + AAAAA#EEE/EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE/EEEEEEEEEEEEEEEEEEEAE @SRR6750053.3 3/1 ATAATNAATAAATCCCAAAAAAAAAAAAAATGAATATTCTAAAGCAAAGGAATAAAAAGAACGTGG + A6AAA#6EAEEEE/EEE/EE/EEEEEEE//<//E/E/////<//A///////////A<//////</ @SRR6750053.4 4/1 GCTCTNGCCTCTCAAGCACGTGGATTTCCTGCTAGTCGTACGCCGATGCGAAACATCTGCCACTCT + AAAAA#EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE @SRR6750053.5 5/1 TGATANAGGAGTCGTACGCCGATGCGAAACATCTGCCACGTGTCCTTCACCGAGGCTAGATCGGAA + AAAAA#EEEAEEEEE/AEEEE6EEEEEEEEEEEEEEEEEEEEEAEEEE/EAEEEEEEEE6AEEEE/ @SRR6750053.6 6/1 ATAGCNCATAAGTAGCAGAACACTGGAAGCTTAGATTTCCCACGTACATCTCGAATGCTCTGGCCT + AAAAA#EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEAEEEEEEEEEEEEEEAEEE
head -n 24 SRR6750053_S1_L001_R2_001.fastq
@SRR6750053.1 1/2 NNGTTCCGGATTGGCTCGTGGCCGATGTTTCGCATCGGCGTACGACTACTATGCAATCAACGTGCTTGAGAGGCCAGAGCATTCGACTATGCAT +
AAAEEEEAEEAAEEEEEE/EEA/6/</A/<6<A<<6E/AE<</<A/<AAAAAEEEE66A6</A</6<AAA/EEAEAAEAAEA6<EEAEAA<E
@SRR6750053.2 2/2 NNGTTTCTTACAATGGAAGTGGCCGCTGTTTCGCATCGGCGTACGACTCAGCGTTAATCCACGTGCTTGAGAGGACAGAGCATTCGAGATCGCA +
/AAEE/EE/EE/EEEAE/EE//E///A///6666/EAAA6/6666/6EAEAEA</<</A/E6/66/6<AA<AE<AE/EE///<AAA/A/A//
@SRR6750053.3 3/2 NNGTGGTTCCAGCACCTCGTGGCCGCTGTTTCGCATCGGCGTACGACTCTACCAAATCCACCTGCTTTAGAGGCCAGAGCAATCGACTATGCAT +
/AAEE/EA/A<EEEEEE/EEAEE6<EAA/66666<EEAAEA6</A////6EAEE///6A///////6/E/</E/<A/<E/</<E6<EA////
@SRR6750053.4 4/2 NNCCGGCGAAGTCGTAGAGTGGCAGCTGTTTCGCATCGGCGTACGACTAGCAGGAAATCCACGTGCTTGAGAGGCCAGAGCCTGTCTCTTATAC +
AAAEEEEEEEEEEEEEE/EE//E6<AAA<66666<EEAEEA6AAAEEEEEEEEEEEEEEEE6<<A6<EEEEEEEEEEEEEAEEEEAEEEEEE
@SRR6750053.5 5/2 NNCCTCGGTGAAGGACACGGGGCAGCTGTTTCGCATCGGCGTACGACTCCTCTATCACTGTCTCTTATACACATCTGACGCTGCCGACGAGCGA +
AAAEAEEEEEEEEEEEE/6E<<E6AEAE/666/6AEA6AE<6A/AAA<EEE</EE/<<<AAA<</<EE/AAA<6<EE<E<A<<AAAE/EEE<
@SRR6750053.6 6/2 NNGTTAAAAGATCATTCCGTGGGCGCTGTTTCGCATCGGCGTACGACTCACCTTACATCCACGTGCTTGAGAGGCCAGAGCATTCGAGATGTAC +
AA/AAA/E/EEAAEEAE/EE/EE//<A//66666/AA6AA<6666/<////<<EE//6<<A6666/66EEAEE/AE<EAE6<EAEE<<E<AE
head -n 24 R22019033_S1_L001_R1_001.fastq
@A01225:473:HG7M5DSX3:1:1101:1371:1016 1:N:0:CAGATC+ATAGAGAG TNATAATACTGGAAATGGGACCTTCTGTCATTGTGATGAGAAAGTAAGTTCATTTAACTTACAGGCAGTCTTGTCCCTTGTAATAACTGCAGCCCAGAATCAATATATTTTTTCAGAGAAAGTTATCCACTCAATTTTTTCTGATTTATA + F#FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFFFFFFFFFF:FFFFFFFFFFFFFFFFFFFFFFFFF:F:F:FFFFFFFFFFFF @A01225:473:HG7M5DSX3:1:1101:3161:1016 1:N:0:CAGATC+ATAGAGAG CNAAAGGATGACATTCCGGGTTTAGTGAGAAACCTTTTCCTCAAAAAATAAAAAAAAAAAAAAAATCTGCTGTCGAATGCTCTGGCCTCTCAAGCACGTGGATTGTATGCGAGTCGTACGCCGATGCGAAACATCGGCCACGGCTACAGG + F#FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFFFFF:FFFFFFFFF,,FFF:FFFFFFFFFFFFFFFFFF:FFFFF:FFFFFFFF,FFFFF:F,FFFFFFFFFFFFFFFF,::,:F:FFF,FFFFFFFFFF @A01225:473:HG7M5DSX3:1:1101:3179:1016 1:N:0:CAGATC+ATAGAGAG TNCATGGGTAAAGGAATCTCAGATGACTTCAGCAAAGGGCCATATTCAAAACTGCTCTCAGAGGGAAAATCTGTTGTCACTGAATTAATGGCCATCACCTGGCCCCCTGCAATCTGTAAGTCATAATAATTCTTGCAAATACTTTTGCAA + F#FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:,F @A01225:473:HG7M5DSX3:1:1101:3215:1016 1:N:0:CAGATC+ATAGAGAG GNGTGTGTGTATGAGGTGAAACAGTTTAATAAAACCTTAGAAAAAAAAAAAAAAATGCGATCTCGAATGCTCTGGCCTCTCAAGCACGTGGATTCTCGGTTAGTCGTACGCCGATGCGAAACATCGGCCACACTTGATGGAGAGCGCACA + F#FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF,FFFFFF:FFFFFFFFFFFFFFFF @A01225:473:HG7M5DSX3:1:1101:3269:1016 1:N:0:CAGATC+ATAGAGAG TNGAAATATTACTTAGTCTTAATAATCTAAGAAGATCTTAAGAGATAACATGAAGGCTTATTTAAACAGTTTGAAAAAGGAAATGAGGAGAAAAGTATTTGTACTGTATAATGGAGGCTGACCAGAGCAGTTTAGGAGATTGTAAAGGGA + :#FFFFFFFFFFFFFFFFFFFFFFFF:FFFFFF:FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:F:FFFFFFFFFFF:FFFFF @A01225:473:HG7M5DSX3:1:1101:3287:1016 1:N:0:CAGATC+ATAGAGAG ANTTAGGCATAGTCGTACGCCGATGCGAAACATCGGCCACTGAACTGGATATGCGGTCAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCAGATCATCTCGTATGCCGTCTTCGGCGTGTAAATGGGGGGGGGGGGGGGGGGGGGGG + F#FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:F,FFF,F::FF,,,,,,F,,,F,,,,,:FFFFFFFFFFFFFFFFFFFFFF
head -n 24 R22019033_S1_L001_R2_001.fastq
@A01225:473:HG7M5DSX3:1:1101:1371:1016 2:N:0:CAGATC+ATAGAGAG GCACTTGAGGAGCACAAGGTGGCCGATGTTTCGCATCGGGCGTACGACTACCTCCAAATCCACGTGCTTGAGAGGCCAGAGCATTCGCGCTGATCTTTTTTTTTTTTTTTGCATTTTATCAGAAAGTTTAATTATAAATCAGAAAAAATT + FFFF,FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFFFFFFFFFFFFF,FFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFFFFFFFFFFFFFFFFFFF:FF:F::F:FFFFFF::F @A01225:473:HG7M5DSX3:1:1101:3161:1016 2:N:0:CAGATC+ATAGAGAG TTGAGAATGCCTGTAGCCGTGGCCGATGTTTCGCATCGGCGTACGACTCGCATACAATCCACGTGCTTGAGAGGCCAGAGCATTCGACAGCAGATTTTTTTTTTTTTTTTATTTTTTGAGGAAAAGGTTTCTCACTAAACCCGGAATGTC + FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFFFFFFF:FFFFFFFFFFFFFFF::FFFFFFFFF,FFFFFFFF:FF,FFFFFFFFFFFFFFFFFFF @A01225:473:HG7M5DSX3:1:1101:3179:1016 2:N:0:CAGATC+ATAGAGAG GGGGAAAAGGAAGAGGAGACAAATTCTGTTGCTACCCTTTCCTATTCCTCTGTGGATGAAACACAAGTCAGAAGTCTCTACGTGAGCTGCAAATCATCTGGCAAGTTTATCTCTTCAGTGCATTCAAGAGAGAGCCAACATAGCAGAAGT + FFFFFFFFFF:FFFFFFFFFFF,FFFFFFFFFFFFFFFFFFFFFFFF:FFFFFFFFFFF:,:FFFFFFFFF:FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFFF:FFFFF:FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FF @A01225:473:HG7M5DSX3:1:1101:3215:1016 2:N:0:CAGATC+ATAGAGAG GTGCGCTCTCCATCAAGTGTGGCCGATGTTTCGCATCGGCGTACGACTAACCGAGAATCCACGTGCTTGAGAGGCCAGAGCATTCGAGATCGCATTTTTTTTTTTTTTTGTAAGGTTTTATTAAACTGTTTCACCTCATACACACACACC + FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFFFFFF:FF:F:FF,FF:::FFFF:FFFFF,FFFFFF:FF,,FFFFF:,:F:FF, @A01225:473:HG7M5DSX3:1:1101:3269:1016 2:N:0:CAGATC+ATAGAGAG TCTCGTCTGCCGCATACAGTGGCCGATGTTTCGCATCGGCGTACGACTACAAGCTAATCCACGTGCTTGAGAGGCCAGAGCATTCGAGTCACTATTTTTTTTTTTTTCAACTACACCTCATTTTCAAACTATTCTCTACAACTTTACTGT + FFFFFFFFFFFFFFFFFFFFFFFFF:FFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:FFFFFFFFFFFF:FFFFFFFFFFFF,FFFFFF:::F:FFFFFFFFFFFFF,,,F:FF:FFFFF:FFFFFFF::FFF,FFF,F,,FFFFFFFFF @A01225:473:HG7M5DSX3:1:1101:3287:1016 2:N:0:CAGATC+ATAGAGAG GACCGCATATCCAGTTCAGTGGCCGATGTTTCGCATCGGCGTACGACTATGCCTAAATCTGTCTCTTATACACATCTGACGCTGCCGACGAATAGAGAGGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAATTTTTTGAAGCAG + FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF:::FFFF,F,:,:,:F
system: shell JOBMODE: local cellranger: 3.0.2 from the 10X genomics
thanks for this tool, and looking forward to your response xiangli