Previous Versions

Space Ranger 4.0.1 (Jun 12, 2025)

tar.gz compression
Download for Linux 64-bit (tar.gz)
File size: 885 MB
md5sum: b0beb100947717cee8c7ad0d7a9f0247
curl
wget
```
curl -o spaceranger-4.0.1.tar.gz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-4.0.1.tar.gz?Expires=1774662994&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=WvuqP51Yp9Xs8Dtg8PASFbwVBHCC1IsQJBuIAlIoj0HayEOujc~ROkb1Tj61cgVovms~iJKy9BST8UFr67PDIA7-ONjRuKjOst7Uu4OS68ZkH2mbhMl0rBPj1556912CiQBmttNbGJD9y4Xef4OEpB33kuSNbIGjIbum7QWMQ3jUH8t9W2MBoNPEY~W-UnZkLjt9XLhZ9LjC6e0auaxN5M9K2k5PCtVY6i0C5lb6F7W5J1HagH45ToB02iRkuFH~deeFb5rQ4qJHhgC5~n16dmT4vliX8EB5q0~W-pF76oAGkSeWknjeVHUrlYVPXCiqKPxLJSit3Y1iqPgl7jLwRQ__"
```

tar.xz compression

File size: 582 MB

md5sum: 3610ff948a6f8129cf49509f1bb34970

curl

wget


curl -o spaceranger-4.0.1.tar.xz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-4.0.1.tar.xz?Expires=1774662994&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=KlrQpC6GvqhIR55R-RQ6D2DF~ntvZt35Ws94NV9z7Z2RwB~GDlJBkMFGrHVY8fVDMLrFYK1eLoeVhTFCN9tW5a4Q~BrQPCC~SDhrvuNY2pUb0hkHuoXEgib3PdE7crHT4CjL-P09z-Xzq6Q3jPFNKGjhsaIsS5dCEo5VbG46EEbKIHO2bKZk7TabGIFYlKiinaYIJEWuOOnzuXt5mkdkGl-TOQh2D8yRxqdyrKgLzcvV0816ZjU-Un1O4j96CuzlTek3OWxmVmlH1rsbCfCK~2WKsT0ZRTedn~HyuX5NshvP0c93K3LqGVa3qdO7OXPmVdjB1IUfIdt8hu2RJN0d5A__"

Download is unavailable on mobile devices.

Space Ranger v4.0.1 highlights

Space Ranger v4.0 now supports Visium HD 3' Gene Expression!
Cell and nucleus segmentation are now included for Visium HD and Visium HD 3' data with H&E images.
Space Ranger v4.0 now features a new UMI-based registration algorithm for Visium HD and Visium HD 3' data.
Starting with v4.0, anonymized telemetry data is collected and sent to 10x Genomics.

Release notes

Space Ranger 3.1.3 (Feb 6, 2025)

tar.gz compression

Download for Linux 64-bit (tar.gz)

File size: 829 MB

md5sum: 2cc7128cd538108d2a8a737ec54df484

curl

wget


curl -o spaceranger-3.1.3.tar.gz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-3.1.3.tar.gz?Expires=1774662994&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=UN6Ua059Da6mG0U8bpXYGbAd8VRE13HwqlH3OC3BRI34k789uc2g1myKa5nWtQegMrSK-SJcp~xClpyJWoALcYcK~WrWe3hwYNol8Xx8Krj9FaP4MmkAxSoaBtDotbAh08loN3ZMzbIiVmhF6fQ~4ccnNSt7X0jWiFU5s3-xAXI9hXo-quA2fTtrSUt69jFgD-haH9QsNAZIF6K07q9ECwxD6dXLrQw-UOPX7NaiWh1efj7mGJwcpeiKhTo3EaikwsvbbGyuMEkCgnLmTh8mjdrRRKNc-XtT5E5E50NwUtcBDeqs-dAw49Fxpg703m-c2rhsh8taFIAMZja1SLuYuw__"

tar.xz compression

Download for Linux 64-bit (tar.xz)

File size: 529 MB

md5sum: 2756aa7e3b66139059667117546c41bb

curl

wget


curl -o spaceranger-3.1.3.tar.xz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-3.1.3.tar.xz?Expires=1774662994&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=KnaBw268x71GvjU0LfskaYj-8faCmdsHY23dWwdV5v8uo5W9Walylv02IpBjQhBJjfVfEjG4p2buINuiAMcy7BCF8vuE3gRSHZMs~nmF013aCSJ~rLxuS47uST1V0hYgiJBR-1flNWiq7RnfGlLp10b7vZ1C4TCU9B4Nxf4aoQFa8YSs2GxatNWJVpkWns3SBGV5Pi8IJtHZGXocm~R2KGrKRnmvQ7E13f8m4D3G8UEs779UZmuuVvrMLZnHAMTZtwJW6VwCqtaRNZIJe7YsB6v1aoJcz67zS43v8sLQtl9nI6SFnAuLMJNDWhGjBokg37yGlojIz7sHhTXwFQMQPg__"

Download is unavailable on mobile devices.

Space Ranger v3.1.3 highlights

Restored support for AVX1 machines.
Other miscellaneous bug fixes.

Release notes

Space Ranger 3.1.2 (Nov 18, 2024)

tar.gz compression

Download for Linux 64-bit (tar.gz)

File size: 867 MB

md5sum: 949088b1e2cc5bd03079b60a65b41d39

curl

wget


curl -o spaceranger-3.1.2.tar.gz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-3.1.2.tar.gz?Expires=1774662994&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=JHXfo-bLPrKr17Jb0b3PyzanBnuef1d4-QkdIidaORstgwM0GS5a5IR0wncjSiINbkP1AmOqivq5JrSeUnPrElNSNEBcpWv6pQ8tZNF4ohubpD5LgnhYJ7BpWxZO1qgyNGvdn8azX5ziy7LM3~SHf144Lo-EykLtiP2DQcS5bc2H304hXQHgxC71PR3zqLSNa7Qv4vlSxJ7D76mUHgFKtfgkwcvn16sHKYgsrCKQMH74U7zJdWeH5~EBf4BOxcmI6U17U8N0bleMCVBI1Dohw1eGthacAdfepQ7LOaTBAvaN9AUCU9dFP7geMaISZ1unBdqiLPirHkthjZHPJ6p30w__"

tar.xz compression

Download for Linux 64-bit (tar.xz)

File size: 552 MB

md5sum: 5a923ae250eea2974fd1cef7b2f9c1e2

curl

wget


curl -o spaceranger-3.1.2.tar.xz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-3.1.2.tar.xz?Expires=1774662994&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=PWlNvJJX2vax5-kRO9wwVuxV3riyyx6vV1HWUNmeuaym723lJ4uXTziwExGfydJ6iHITv86qAq-t4YqqaIt4kUSV3Cn87ezEBWpHNoddKWOsXQYN~mVEI7-FBrqCl0PMAXi-Hm1zWBoa7VPm2xQS7wx~-jCpeJiJsdePb0WOkHQF84bs3YgCFpbHvOGS6jW47RB1Fp7z-4Y6ReeoDy9jVHXwg9nZAWv4DfkHFXipUfrnpG77v~Yoz2urQmiR9N8ubj9hxy5VFy0DVj5t~eKPRJuSwQDe0kZboSYLGdv4XQ94A5SpxwCFMGOWp8CBrbPV2LX7E3d6ktvDkRrNFKLtcA__"

Download is unavailable on mobile devices.

Space Ranger v3.1.2 highlights

In Space Ranger v3.1.2, the pipeline automatically corrects Visium HD CytAssist images generated with instrument firmware v2.1 to account for a bug that affects registration between gene expression data and the microscope image.
Adds metrics “Number of UMIs per mm squared of Tissue” and “Number of Reads per mm squared of Tissue” to the web_summary.html file.

Release notes

Space Ranger 3.1.0 (Aug 28, 2024)

tar.gz compression

Download for Linux 64-bit (tar.gz)

File size: 827 MB

md5sum: 13a2c82adfb1f1efb737e2be121000d1

curl

wget


curl -o spaceranger-3.1.0.tar.gz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-3.1.0.tar.gz?Expires=1774662994&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=VJ8Uf4ZQdMcqiV2Qifv-Eq3wSWJNo3y38XfhwpQ-y3ujUOFuRucK-Zn1OWIU5ttfhMAKFOb1Zd6H6~9fNfOvShI-L~fdpjDRDcxSxrHTgdDAuEnDk7LfWINatUPuc2Q~q9n3Tit73ERgdFY92G2Vo~8ZJWq1qA8GmrY3djovz5FvRu3jFzi5kkgDFs-cpeJR~SVEsmO5U24FVh~n5WmuDYXUP5VBntuxKCpg9UcTp5zqa-0QTxWtnB~NcRsffnl1T54b-tdkdnk50LlbUcB8cyz0imKxNq6k-Xo1QV0hziuz0NCyEVIVgxqYByYCyLLKOa68KHehyf8BaXKMitollg__"

tar.xz compression

Download for Linux 64-bit (tar.xz)

File size: 527 MB

md5sum: 28010d3724e9effc488470a961fe39fd

curl

wget


curl -o spaceranger-3.1.0.tar.xz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-3.1.0.tar.xz?Expires=1774662994&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=dzelqF1pEMmQJzIe2K2i4XkkwAYHmryNN9OoPy4FchHHg1OHZY1bmvJhcakhzxKkUCBfErLwRGzJsvkqdrT7BeOcrUQDlRFRXZ5RvXJRhT1aQ-hhQwIIuIjfss2~rYR2qB8gAbScxxmrcCYw98r5InJtFJsZ1ecmmix~CHc9h0QRHKJgka8koCjIW95aA~w5rdh~jwDqHcU8lAisT5j36vd9kHV0ryBROIMTyRtTzTqOSh18sIAO~Ylek9pCiAduIElKVZjUnU6QYMRgIhCGCFmt4sawLddFj7ZhQ0iqHZJWbrmueKGDWnxYcmjo1ONyDJ-5C84hJsH6BtQKdE6y8w__"

Download is unavailable on mobile devices.

Space Ranger 3.1.0 highlights

In Space Ranger v3.1.0, the pipeline has been overhauled to significantly improve the CytAssist to microscope image registration process.

Release notes

Space Ranger 3.0.1 (May 31, 2024)

tar.gz compression

Download for Linux 64-bit (tar.gz)

File size: 757 MB

md5sum: ae65e7ffdddbb966277b7d1776f8c63c

curl

wget


curl -o spaceranger-3.0.1.tar.gz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-3.0.1.tar.gz?Expires=1774662994&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=emMjlcV6SbbFG99yamCsGWKBm1d5tKB89AjDU4h4FyuRembiuIQr2uEdhQ-UkjlkBek-WyUNoJf1~EZBaJcVuwkc2zs7lm3aLiiZkSzNq1dhdj3oXT~YFYgnD2ww-fOdsSMXyE-DJkdWK0dTbUt9qxuXDmAdtK1PSpDIY71htgiIijCiB5H1BjIx3E4JT6Z6No~WzGlJ4AARs2g3kjloKjZ~EwPZ1MOlRCOMab6fJZo4mR0Q-1zht8InWa-W-ETPjXp9zraD9qf1pZ6XaZlNw5LCzwqbJJCalN2eh7wSrfK5-mZ0ULWJ1QQ82jmm70KlZujQ4DBxRpFOS1jUAW-NKg__"

tar.xz compression

Download for Linux 64-bit (tar.xz)

File size: 481 MB

md5sum: 451495ee2074ff9adbac49ff8851ea1b

curl

wget


curl -o spaceranger-3.0.1.tar.xz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-3.0.1.tar.xz?Expires=1774662994&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=bqt~IK89VtTilR-OAd-7wvmJE3dqPbU-80in2Dl-swusiuGcMojNZbaYZIl~H2TwcVmCJZkvSFvhn3fc9yugWjhLvi~3OAtcM86hgnaLfAd6i-Y~VEcWxqXB4P7i3D4ZvmX-kFOncAT~k0NiYRYf589e6N848PEaFoG6uar2Qe7GcFN400w69tUM2nF1qe6sL3Tuz2Sm9I64yr3sIvaqCCK7-A3MBuutfZsGall1PNW8Lg9oqtqvVS9-XB36IpFlij1BMqiv5OW89i6O1~bYfJA7rdcvib~Hq0xTU4ZC424vpNZTDcy~1NdbMvAuJJrzNG5EqWX6T-QEQV4XDUcHUQ__"

Download is unavailable on mobile devices.

Space Ranger 3.0.1 highlights

Space Ranger v3.0 now supports Visium HD!
Space Ranger v3.0.1 includes bug fixes and other improvements.

Release notes

Space Ranger 3.0.0 (Mar 25, 2024)

tar.gz compression

Download for Linux 64-bit (tar.gz)

File size: 795 MB

md5sum: 19f4443f10cf94aff5768bd8968cb214

curl

wget


curl -o spaceranger-3.0.0.tar.gz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-3.0.0.tar.gz?Expires=1774662994&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=BD3brw5zRRZ~A4198~nQOa3sjSZOCEHrIL8XJABgJz-V3GRigf4G2Z5i4c-EvXLmPyK4WhPkUucrYbUJBM3N5tghCXGWK1duc-TnsWfwJv~yc3hyliRUrBQcxc6h1LCLwKqErD6Fid9Nm4F1yiSxqKBizohGzziMspvdKt4pQ0T6-pPZ4O9j9vkwd-i4fvVPli9kgzidNWumyYausK3q5dC~M0Y9hwpYsxp341QyrQvfLdiq6aJ00VnDCVR2YtLjSh4Usmxh8S9vL8YnG35PpUhp0ng5-fVO421OcXN143JxIiIdJI~P--3wVvcR7j8A1hN7WjDXz43vIzvRsycSXg__"

tar.xz compression

Download for Linux 64-bit (tar.xz)

File size: 507 MB

md5sum: cd02b83fe849672066c40a1734819432

curl

wget


curl -o spaceranger-3.0.0.tar.xz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-3.0.0.tar.xz?Expires=1774662994&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=czPxL6OLDMZMmR~LiWe5GNEf3kwQUajeI6P59wq0Yn~sTKtRxpp8GefmBEmEmw~-2gZN1P1TehPgdtITUny3EwIN9TPAkT~4Wv-kj0mptNVEAIMS-qB25cBYKuvG2cDgWYVTvUs12ojkfPVaXbURHpYWb~4YWRJ5X72XEpWYxGHEV8oj9cZDVhpJXRNRb4yhdbd0cS14zO7NtuQY9oWKAk7whaOYK5HXvxiT6z2Hf6m7CGXYAf8ZGTyQrZaruF9TINtuVm1Br0~dwEiUJBrWWiwJfEpKR0tA-H-yhQE16eYMrTrsELeIIy99WpvqjJEiPx~oCzbYXR3mlidY~GXS5Q__"

Download is unavailable on mobile devices.

Space Ranger 3.0.0 highlights

Space Ranger now supports Visium HD!

Release notes

Space Ranger 2.1.1 (Oct 2, 2023)

tar.gz compression

Download for Linux 64-bit (tar.gz)

File size: 707 MB

md5sum: 0ef64524af2735bd2a0fc9eef5a605f6

curl

wget


curl -o spaceranger-2.1.1.tar.gz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-2.1.1.tar.gz?Expires=1774662994&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=S0JDILYS3QK8~dF5re3mnBkPeZxu9SyH-OngU6FroWdcJZCU064SL2EvqGvmWD6-TUW6qO7f-x4-lh~FOyEVHwbzer4xxFkaar6K8~A9EDNIDb~Ik-QESuNDUHWLr7zu7lc-UZZFNndsW-IKrZmChsZ8ZQWWoL0u6m8mS1wNMjNfwoOVApXWYuR1TKMB3-56e58Fv76MtjEc6yxnah-dA3DAFfeBPdyI1gaJ~N6XcssXdODSFe~sX7obZBai2ludA2MbiP4mzo73j2pFmccZbuc7LTTbPcWf05VgwexKrEd9zil58bgWh6xIEcFTLknZJEVaddBfopXuIPOfD~R4kQ__"

tar.xz compression

Download for Linux 64-bit (tar.xz)

File size: 465 MB

md5sum: e1204bb11b3589bc5d5af244b51bfc18

curl

wget


curl -o spaceranger-2.1.1.tar.xz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-2.1.1.tar.xz?Expires=1774662994&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=SsZXKoKr3FRnBVsSrPKpM7jo3kTbbkbb4eepzrvUpPnI7Gtqh5-BGeb70QJF3Uff0z~M73qAiBDe4Rzc0Aj5ufvFWarJsb-ULTyqnU2H0YWHYouB8EOa5sBfd~ndWgMdpb~FOzkzCC~z504ugUmw3R8kD1YvWjRQym00sLI4pLvSuqjRny1ZLRoC~0Y3WFfcD4Cl40qksfKuQhrOJ87lm1~GqZDn80hAnO~W7Bewu5RX4McGNPDnYE9wFJHqtBk~~vo5OYhhqNhJmOueq6JcWPcBcnCsL46RHaEvfXKwrOBFu8dkudY~MB0BCeoGZX19tTIB06dGqTLhp4ygzTHKpQ__"

Download is unavailable on mobile devices.

Space Ranger 2.1.1 highlights

Fixed a bug where 8-bit grayscale images were inadvertently turned into 8-bit RGB color images for tissue registration.

Release notes

Space Ranger 2.1.0 (May 16, 2023)

tar.gz compression

Download for Linux 64-bit (tar.gz)

File size: 707 MB

md5sum: ee94c453c44770b2b69d6be46b948e3e

curl

wget


curl -o spaceranger-2.1.0.tar.gz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-2.1.0.tar.gz?Expires=1774662994&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=ljblk8rzbtHU~JZDwYdNjbl-OuIDyT-wByID7f5toqaJvQDrMUQUJP9fq5xfx5uh0n-D5bmc3Z9QqCMr~J2wcEXnRYN-AaO3Db4ji3v~mkAB2-UbmNROK~GEAsy9XAjduTp-ZpLWk1U9Kupa5KbURHvLF41hK2wBNZ3U~KcLCfsud5PPJvnTVSn8bAgPRLpDV6ar9ey3qSy8LQKoaGWBid5HoJtly45Iaw6YWsX6s7hDflle1W3hbtTJHOdBM-v2bZIfkEEBmUHfzs~E4B2ZUVu3Szl4caQUYuEpb3~oipsbu6fi~8CcbfQ6Vf-lsLvUInSGlfnghebgujNggOq1DA__"

tar.xz compression

Download for Linux 64-bit (tar.xz)

File size: 465 MB

md5sum: a0d90129a81c41cbdd728e23a4d25161

curl

wget


curl -o spaceranger-2.1.0.tar.xz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-2.1.0.tar.xz?Expires=1774662994&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=RwmaDriplV9Wz0rTe6eak16e~HhKhncOI9vKFvkmE05PnBZH2UNcvQN4W0fKd0cJhNmhmTZvgObW7XZBZct6ZBAufTTSbj22XeX6cHvG4pM4Y8iPNlEuSNw37yKue6odPuK55-eaHGkElp4V64GeWoOr5lydTfhYTTKGe6FyqdOoA3JjWDsiGr7ci8d2Q-kbNfjaRmA3eY81FKDth79WCIT3tvV6fjSkkWQct2F6BnRZWPdLZBMXyhsfZUQosv~IyWbQw44GC9O70XvZlrYt~INOCt7U8UB0eJIyWhqc21LZdufKHiPW4qlIeSwzCFedzQpKC7VFfr6cQ4Z7aMDLuQ__"

Download is unavailable on mobile devices.

Space Ranger 2.1.0 highlights

New feature: Gene + Protein Expression on Visium CytAssist.
New feature: Reference-free spot deconvolution.
Added support for bigtiff (btf, tf2, and tf8) image file extensions.

Release notes

Space Ranger 2.0.1 (Dec 7, 2022)

tar.gz compression

Download for Linux 64-bit (tar.gz)

File size: 664 MB

md5sum: 26151804338ae4d4b44151232bd64b50

curl

wget


curl -o spaceranger-2.0.1.tar.gz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-2.0.1.tar.gz?Expires=1774662994&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=MQFtg2NndJG7jXm122y8u-7C0-pY2PIDwUFNSb9vAfJopScw19uVaJ4MsBFXCiuMbJjN8gf9kSfRGUVd~jZ5wBxF1UsEh94rc6~a3kmtkjJsyrih8~Bta0YhVJ~iq2wTJ1g69zG9GSzMEan6o75wstIz5Op7rvpGiDvlVDRUETAJnqzkgyI8lq8LGk~PcDLRAOuWClfSorch7jRwPGKazqR~LgUrpHrZu3KVohDdsqIhGI5L~i3PlNSLv~xGzz~jgnR~j4LJCqQOH650HqIdO586~TuqzQC2tYjKNbdc7RyY5rSnFiSjKUlEsfLKFs8WhHRYzNZSeRPQtHhH8kxVCw__"

Download is unavailable on mobile devices.

Space Ranger 2.0.1 highlights

Reclustering workflow now supports generating a UMAP projection in addition to the t-SNE projection.
Visium Image Manual Aligner now includes additional support for images with difficult to detect fiducials.
A new Spatial Enrichment table which allows users to sort and filter features by their Moran’s I value for Visium Spatial Gene Expression is added.

Release notes

Space Ranger 2.0.0 (Jul 18, 2022)

tar.gz compression

Download for Linux 64-bit (tar.gz)

File size: 662 MB

md5sum: aec9ec128c7bc9fbf9fd6d31aa390d4c

curl

wget


curl -o spaceranger-2.0.0.tar.gz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-2.0.0.tar.gz?Expires=1774662994&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=IVSs4XdsZ0v9hxifJij1X6aExICAj93iKk54NHLoEDGSinPwFZ4nGvjVQqmCIvV4afLbvpsdXZE0Nn1-oYzyd9j2AsWYowRj5mMaLSanddyQ4MxlTCmU0ZRK5p3G9gG4dClJiLF0jBMZfyXWwEISWzpbu929RKYAXhuOGPBK-RrwM4K0zvNe~0GYXaR2ncDfYPXd2O3pdjbaa5BbxofzESbP8OwtyJ4GW13NSPiyZKHx7j~agGwRxfMGJgAsZ6w6nOjopWCoXQp9fXM0tC9K15zMhTO3hcg9h~D341VlHgiJNzHXTgFSsHiordjkoyrlWEjqwsV~A4khlcCTgsp6yA__"

Download is unavailable on mobile devices.

Space Ranger 2.0.0 highlights

Space Ranger now supports CytAssist-enabled Gene Expression analysis and includes image registration between the CytAssist image and the microscope image of the same tissue section.
spaceranger count now quantifies fluorescence intensity in the image at every barcoded-spot location.

Release notes

Space Ranger 1.3.1 (Nov 1, 2021)

tar.gz compression

Download for Linux 64-bit (tar.gz)

File size: 1.2 GB

md5sum: c2eb73125d9ee731fa825ea3734be1b4

curl

wget


curl -o spaceranger-1.3.1.tar.gz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-1.3.1.tar.gz?Expires=1774662994&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=f6y8lSNNxzq~9xQ7I4TdVKEOor~OswVzWqiau0RiBYuaxMhyraujzcg2l~6-nBxKZa7YQe8LGdGk91MN5-AIEt1HAcdMjlTXuwMT6aG7yiGJnS41xy35sKlFNoEs2fAt6icQvZfAlQSqBtL5KSzAoaTPqFcKWtlpNqoeDVnQnHC5E66IsoMNF6gcpIaLdNxyvgO6~RFI8ttDH5Eg3FbPL91v29OHRizGJtGpHflR8HtIjkd~c7ECo7mbYmH6nGT3NhYBNWtycHw3bOF~3Lgkbupb47-F5RxvruMp3nfBWsy1K9ZG~AKmi69gr8Zn7Lv~dngFvXKcqSpaq7It~FcHvA__"

Download is unavailable on mobile devices.

Space Ranger 1.3.1 highlights

Adds an alert if image alignment would have produced a different result if the --reorient-images option was specified.
Update warning for low fraction of reads confidently mapped to the probe set to be more informative.
Unsets additional sysconfig environment variables prior to pipeline execution, which may otherwise interfere with the pipeline conda environment.
Fixes an issue with mkfastq when bcl2fastq requires LD_LIBRARY_PATH.

Release notes

Space Ranger 1.3.0 (Jun 9, 2021)

tar.gz compression

Download for Linux 64-bit (tar.gz)

File size: 1.2 GB

md5sum: ede7f98db5adf7785e35ae0508c48f74

curl

wget


curl -o spaceranger-1.3.0.tar.gz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-1.3.0.tar.gz?Expires=1774662994&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=Dfr2JsXVQcX1eeDpoJXrF7mAjE8I5kluJsTtXxK9vNBYElqTbn76sIfS26c0ozbSfYRPABeegoKR4hefTbE3gDInQ5b711wKqZiZ6d9ItvZaqT98HA6-dXJlWmMko6J5KOs4RQ00iDYOtV9IZsyd0kx9DXr9CKlaHa5cAiwDnjVlzWPxi-6jAi6G5y0pYQ-aGf6Hr5228J0zc0mWbqviuOLr6eTZRfzcxy8ZhWNAvQIfA0sWxffFHcxqurGJvFmtfY4P4bUXDYXfLXxDjuCcs7XRZspGVrHrIDRxW4Kr~5HYrtJhUG~1Yms4dLGiQaA1pQM6q0WpDbl0OrzFiZ6NKg__"

Download is unavailable on mobile devices.

Space Ranger 1.3.0 highlights

The recommended operating systems for Space Ranger 1.3.0 are CentOS 7 or Ubuntu 14 Linux variants or newer. CentOS 6 and Ubuntu 12 are still supported but have been deprecated.
Gene Expression analysis from formalin fixed paraffin embedded (FFPE) samples is now available in Space Ranger and is invoked by specifying the --probe-set option when running the spaceranger count command. Space Ranger 1.3.0 or later is required to analyze FFPE data.
Space Ranger now calculates the Moran's I spatial autocorrelation metric on a per-gene basis.

Release notes

Space Ranger 1.2.2 (Feb 3, 2021)

tar.gz compression

Download for Linux 64-bit (tar.gz)

File size: 1.2 GB

md5sum: 3280a085714ce7c894dc14b76312bcda

curl

wget


curl -o spaceranger-1.2.2.tar.gz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-1.2.2.tar.gz?Expires=1774662994&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=mSPotqJ8IPvXxfULkc0A5O2P0vrKYH4FALwjAYW27QSeCbac8h948t8Iex6j5r-TyqQ6JJ7BQlfARD0OPD~HTF~Hzvhag~2~wwIVhmXXPcsnGoU6ydpYH8jPD~fccmDzWmVtHslPb5HjTHqt~qhK29SzL3Pl4Ky6JZ9bdX7M9ZKu5VpiKqbtHLzFf0u6lgi64E-EW6ODldckFRk1dEU6FSHtFdUbll7vwU-tJsQMzs3ugivNc3uGFc2MAV1u6SCZ7IudgR9OEaZFmCQ656JkFrZ1pgFz3pjG9RHFvaHwEqMzPyuSai45h7LdDmSjIKsSar6QzQ4EJzstkZjJ7hD8ZQ__"

Download is unavailable on mobile devices.

Space Ranger 1.2.2 highlights

Adds support for pyramid TIFFs, or TIFFs with multiple pages of the same image at different resolutions.
Fixes an issue where targeted samples run against new references would fail preflight.

Release notes

Space Ranger 1.2.1 (Dec 10, 2020)

tar.gz compression

Download for Linux 64-bit (tar.gz)

File size: 1.2 GB

md5sum: c24ecfc95c5e4f1c268354c5934da98e

curl

wget


curl -o spaceranger-1.2.1.tar.gz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-1.2.1.tar.gz?Expires=1774662994&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=B50XEbByyl56QBNBuSfDAbRgQXhMtxaMq4LBI1a3m0AyYSXROyYkgFrigq0wGxlKtkWwvPSxmP1ZipcSH5zCjam2rK9qa829CY-qO-ea2F7E6EHW-Z84~zolVZjYchbPCnb4UOStB2P51GtU-5weShQ003G4zyQ~BHN6m341m0rRl49yAPtFDfdGU49E3qlLSVx0rw1u9VgzKbJRjEg8RTiyXonhalesO2JE66VQ0nwjPmbvWJwtP7eF2SFE0weKiGzM9p2xUmnsCp13axs~MuYKcGoxwvXYtpTwMDZIR6w89Cngk3-c3y95gSewnajA3VnNYKev9gBWejbAJyiPSA__"

Download is unavailable on mobile devices.

Space Ranger 1.2.1 highlights

Fixed an issue in aggr where files would fail to be copied on NFSv4 File Systems.
Disables multithreading in mkref to address an issue where mkref would fail on hardware without AVX support.
Better error handling if the pipeline fails due to a missing .env.json file due to an incomplete copy of the application folder.

Release notes

Space Ranger 1.2.0 (Oct 27, 2020)

tar.gz compression

Download for Linux 64-bit (tar.gz)

File size: 1.2 GB

md5sum: fc21902700779111afc3c813bbb0ff5e

curl

wget


curl -o spaceranger-1.2.0.tar.gz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-1.2.0.tar.gz?Expires=1774662994&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=Bh9dmb-hSHB4hd~plxU8fPCRDl4mE6Z-k-ACRU1pWpGQDVPPNvqRoBIVr2XLwYvmGdvu2lep1VkXE1R2qcQFKWNAF~FibhrMZEbdqBPATfo3YL5K10yY7En8d1zXRi68h1s6KZeLHoeDUZYuaJiMvaMR-mET3iUiU3GOv9u~Vftjz89nkocHOeZFdQ7m~~MlT6vpvdH8J1YXFEeyoeJlWpvKCelJDf9yMOvT1SRwsp-olbhGgLVhhRAmdDjbTiQ-tdmge2kEwS~AwpldyQr1w9VOPS3X5VyS5apZPKLMYSBaEEF1rSyBsF7s0zB~XMY8NIylBRnTrn8-r1oTJZfKxA__"

Download is unavailable on mobile devices.

Space Ranger 1.2.0 highlights

Targeted Gene Expression analysis is available in Space Ranger 1.2.
Introduces the new spaceranger targeted-compare pipeline for direct comparative analysis of matched parent Whole Transcriptome Amplification (WTA) and Targeted Gene Expression datasets.
Includes the spaceranger targeted-depth subcommand to estimate sequencing depths appropriate for Spatial Targeted Gene Expression experiments.
A new command line option, --no-bam, instructs the pipeline not to construct BAM files.

Release notes

Space Ranger 1.1.0 (Jun 23, 2020)

tar.gz compression

Download for Linux 64-bit (tar.gz)

File size: 1.2 GB

md5sum: 708b93997295db31bc457b3d9af79ca2

curl

wget


curl -o spaceranger-1.1.0.tar.gz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-1.1.0.tar.gz?Expires=1774662994&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=co4RYC1JPQ6DVkrm-u36Xku71enHg65u1QFsZmSOqqFp00IOTz2kcIHivvqdKubtCsPE-NsD6YEUfrSZ1wKrkS~fO9PxSk-AcEIxO4J8BirQLgnZtmML9iYjv04TpiNBdVQlbQ7-d42OHuM~c5tVlQC8MGtH~a4cqUq94xEeP5BSGk3B28q1LwceRbn5zI-oK9JRsZa73kRWT8nI-Tla8K7nwvETDSR~uI5jXei9W7cXehx8FqIY985vsHYwf7Ikqj6iv7OeuQ7bph--GBqASmsLwKb-BpJhBGpyjfB2LICWBP0GP1~JOV8ny2F9b3LDR4-gdLq5D8J2FiY4A~wDrg__"

Download is unavailable on mobile devices.

Space Ranger 1.1.0 highlights

Support for fluorescence imaging input such as IHC/IF.
Aggregation of multiple datasets.
Optional automatic rotation of slide images.

Release notes

Space Ranger 1.0.0 (Dec 2, 2019)

tar.gz compression

Download for Linux 64-bit (tar.gz)

File size: 1.3 GB

md5sum: 5cc7fb86d0cbff7df687b11575efb7cb

curl

wget


curl -o spaceranger-1.0.0.tar.gz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-1.0.0.tar.gz?Expires=1774662994&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=ojxKv0B5vPtJp5~W7OEpOy5f05IHaQ4X1jDdnMsmX-iYuCakqOv4I2~r2Qv5RqZZ3Co4J9h7rjZPZ4B~xi9xMm7g0kTIPY8sqZcJUqVoA5F95ej-8CgHBgo1KxTR6eTNPc1sjng2HqzU0ezoj-lULUtvoZeQVeII1GgtZoNQI8bTSAI7wXpNwnKerS8k~5F450xjjV1w2jrvf-F3TLWwUu~JtrYEBZCmAvFfrZglqPtEI0zhnZfXXUpcWYQqsCbobvevkmAQkWGlux2WXSHSqIzkp2NfWHpC~wZOQMBot9joJUk3t3ZA0S1j8ufq0IKUCFV2sRDyKbPShNTSnpPR5Q__"

Download is unavailable on mobile devices.

Space Ranger 1.0.0 highlights

Initial release of Space Ranger.

Release notes